SYSTEMIC LUPUS ERYTHEMATOSUS DIAGNOSTIC ASSAY

- BAYLOR RESEARCH INSTITUTE

The present invention provides compositions and methods for aiding in the diagnosis, monitoring and prognosis of SLE in a subject and for identifying potential therapeutic agents to treat and/or ameliorate the symptoms associated with SLE. Accordingly, embodiments of the invention are directed to methods of identifying the gene expression profile of a suitable sample by screening for the presence of a differentially expressed SLE-associated gene isolated from a sample containing or suspected of containing a cell that can differentially express an SLE-associated gene.

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Description
STATEMENT AS TO FEDERALLY SPONSORED RESEARCH

Funding for the work described herein was provided in part by the National Institutes of Health grant no. RFP N01-AI-05412. The federal government may have certain rights in the invention.

TECHNICAL FIELD OF INVENTION

This invention relates to expression profiles for the diagnosis, prognosis, monitoring and therapeutic management of patients with Systemic Lupus Erythematosus (SLE).

BACKGROUND OF THE INVENTION

Systemic lupus erythematosus (SLE) is an autoimmune disease clinically characterized by a waxing and waning course and by involvement of multiple organs including skin, kidneys and central nervous system (Kammer G M and Tsokos G C Eds. (1999) Lupus: Molecular and Cellular Pathogenesis 1st Ed, Human Press, N.J.; Lahita R G Ed. (1999) Systemic Lupus Erythromatosus, 3rd Ed, Academic Press, Amsterdams. The overall prevalence of SLE is about one in 2000, and about one in 700 Caucasian women develops SLE during her life time. Lahita R G (1999) supra. In the United States alone, over half a million people have SLE, and most are women in their childbearing years (Hardin J A (2003) J. Exp. Med. 185:1101-1111).

There is no single criteria to diagnose SLE. The American College of Rheumatology has developed 11 criteria to diagnose SLE, which span the clinical spectrum of SLE in aspects of skin, systemic, and laboratory tests. These criteria include malar rash, discoid rash, sensitivity to sun light, oral ulcers, arthritis, serositis, kidney and central nervous system inflammation, blood alterations, and the presence of antinuclear antibodies. A patient must meet four of these criteria in order to be classified as a SLE patient. (Tan et al. (1982) Arthritis Rheumatol. 25:1271-1277, the contents of which are incorporated by reference.) SLE is usually confirmed by tests including, but not limited to, blood tests to detect anti-nuclear antibodies; blood and urine tests to assess kidney function; complement tests to detect the presence of low levels of complement that are often associated with SLE; a sedimentation rate (ESR) or C-reactive protein (CRP) to measure inflammation levels; X-rays to assess lung damage and EKGs to assess heart damage.

Designing successful randomized controlled trials in SLE poses many challenges because it is a relapsing, remitting disease, with multiorgan system involvement ranging from mild to life threatening manifestations. While it is possible to identify serologic and immunologic abnormalities which characterize active disease, it has not previously been possible to treat expectantly, nor to initiate prophylactic, potentially preventative interventions on the basis of these markers. In addition, it has been difficult to correlate alterations in biologic markers with clinical outcome, especially when signs and symptoms are intermittent and broadly variable between patients. Accordingly, it would be useful to be able correlate gene expression profiles with prognosis and efficacy of therapeutic intervention.

The applicants generated previously expression profiles of SLE patients and controls using microarray technology. In the prior studies, it was found that 210 genes were up-regulated and 141 genes were down-regulated when PBMCs were isolated from 30 pediatric SLE patients (an auto-immune disease) as compared to healthy controls and patients with juvenile chronic arthritis (an auto-inflammatory disease). Fourteen of 15 genes showing the greatest differential expression were interferon (IFN) regulated (Bennett et al. (2003) J. Exp. Med. 197:711-723). Baechler et al. (2003 Proc. Natl. Acad. Sci. USA 100:2610-2615 and U.S. 2004/0033498), identified 161 genes, 23 of which are IFN-inducible, that were differentially expressed by at least 1.5 fold in peripheral blood mononuclear cells (PBMCs) isolated from 48 adult SLE patients compared to healthy adult controls. The IFN gene expression signature in SLE patients was correlated with disease severity. However, neither of these studies examined correlations between gene expression and the likelihood to develop renal disease in SLE patients.

The standard therapy for SLE is administration of the steroid glucocorticoid, a general immune response inhibitor. It can be used to relieve symptoms; however, no cure for SLE is currently available. Low dose p.o. prednisone at a level less than 0.5 mg/kg/day is usually given. Unfortunately, this therapy is insufficient to keep children in remission, and flaring of the disease is frequent. Flares can be controlled with high dose glucocorticoid via intravenous pulses at 30 mg methylprednisolone/kg/day for 3 consecutive days. However, steroid treatment at high dosage can present severe side effects for patients, especially pediatric patients.

Up to 25% of all SLE cases start before the age of 18 years. Children with SLE typically have more severe symptoms. Approximately 70% of pediatric SLE patients develop kidney involvement leading to renal failure, and 18% of children with SLE progress towards death. Lahita R G (1999) supra. Because pediatric SLE patients may develop life-threatening renal involvement, they are often treated aggressively with steroids, resulting in harmful or unwanted side effects which are typically more serious in children than in adults. Accordingly, the ability to predict the likelihood that an individual patient will develop renal disease would make it possible to reduce the dose of steroids or other treatments in those children who are unlikely to develop renal involvement, or to tailor other treatment plans according to the predicted outcome. Therefore, there is an unmet and urgent medical need for diagnostic methods that will predict the likelihood of renal involvement, as well as to diagnose SLE, distinguish SLE gene expression profiles from profiles of patients infected with influenza, and to monitor disease progression and treatment. This invention satisfies these needs and provides related advantages as well.

SUMMARY OF THE INVENTION

The present invention provides compositions and methods for aiding in the diagnosis, prognosis and disease monitoring of SLE in a subject and for evaluating potential therapeutic agents to treat and/or ameliorate the symptoms associated with SLE. Embodiments of the invention are directed to methods of identifying the gene expression profile of a suitable sample by screening for the presence of one or more differentially expressed SLE-associated genes in a sample containing or suspected of containing a cell that can differentially express an SLE-associated gene, These cells include, but are not limited to, peripheral blood mononuclear cells, neutrophils and granulocytes obtained from the subject.

Detection of differentially expressed SLE-associated genes can be by any appropriate method, including for example, detecting the quantity of mRNA transcribed from a gene identified in Table 1A, 1B 2A, 2B, 3A, 3B and/or 4, or the quantity of the polypeptide or protein encoded by the gene. These methods can be performed on a sample by sample basis or modified for high throughput analysis. Additionally, databases containing quantitative full or partial transcripts or protein sequences isolated from a cell sample can be searched and analyzed for the presence and amount of transcript or expressed polypeptide product. The methods are particularly useful for diagnosing SLE and for predicting which SLE patients, especially pediatric SLE patients, are likely to develop renal involvement. In addition, the methods are useful to distinguish a patient with SLE from patients without SLE and patients with fibromyalgia or viral infection.

Thus, in one aspect, the invention provides a method for predicting whether a mammal suffering from systemic lupus erythematosus (SLE) is likely to develop renal involvement, by determining whether or not the mammal contains one or more cells that express at least 1 gene listed in Table 1A by at least 50% less and/or at least 1 gene listed in Table 1B by at least two-fold more than one or more controls, and predicting that the mammal suffering from SLE is likely to develop renal involvement if the mammal contains the cell, or predicting that the mammal is not likely to develop renal involvement if the cell is not identified.

Alternatively, the invention provides a method for predicting whether a mammal suffering from systemic lupus erythematosus (SLE) is likely to develop renal involvement, by providing a plurality of reference expression profiles, each associated with a likelihood that an SLE patient will develop renal disease; providing a subject expression profile generated from at least one cell and/or sample from a mammalian subject; and selecting the reference expression profile most similar to the subject expression profile, to associate a likelihood of the developing renal disease with the subject; wherein, the subject expression profile and the reference expression profiles represent the level of expression of at least one gene listed in Table 1A and/or Table 1B.

In another aspect, the invention provides a method for diagnosing systemic lupus erythematosus (SLE), including the steps of determining whether or not a mammal contains one or more cells that express at least 375 genes listed in Table 2A by at least 50% less, and/or in Table 2B to an extent at least two-fold more, than one or more controls; and diagnosing the mammal as having SLE if the mammal contains the one or more cells or diagnosing the mammal as not having SLE if the cells are not identified.

Alternatively, the invention provides a method for diagnosing systemic lupus erythematosus (SLE), by providing a plurality of reference expression profiles, each associated with the presence or absence of SLE, and optionally with the severity of SLE; providing a subject expression profile generated from one or more cells or other sample from a mammalian subject; and selecting the reference expression profile most similar to the subject expression profile, to thereby diagnose the presence or absence of SLE in the subject, and optionally the severity of SLE in the subject; wherein, the subject expression profile and the reference expression profiles represent the level of expression of at least 375 genes listed in Table 2A and/or Table 2B.

In still another aspect, the invention provides a method for distinguishing a mammal suffering from systemic lupus erythematosus (SLE) as compared to a mammal not suffering from SLE and having a viral infection, determining whether or not the mammal contains a cell that expresses at least 1 gene listed in Table 3A by at least 50% less, and/or at least 1 gene listed in Table 3B by at least two-fold greater, than one or more control cells; and diagnosing the mammal as having SLE if the mammal contains the cell(s) or as not having SLE if the cell(s) are not identified.

In still another aspect, the invention provides a method for diagnosing systemic lupus erythematosus (SLE), by providing a plurality of reference expression profiles, each associated with the presence or absence of SLE, and optionally with the severity of SLE; providing a subject expression profile generated from one or more cells or other sample from a mammalian subject; and selecting the reference expression profile most similar to the subject expression profile, to thereby diagnose the presence or absence of SLE in the subject, and optionally the severity of SLE in the subject; wherein, the subject expression profile and the reference expression profiles represent the level of expression of one or more genes listed in Table 3A and/or Table 3B.

In another aspect, the invention provides a method of diagnosing system lupus erythematosus (SLE), by determining whether a mammal contains one or more cells that express at least one gene selected from Table 4 to an extent at least two-fold greater than one or more controls; and diagnosing the mammal as having SLE if the mammal contains the one or more cells, or as not having SLE if the cells are not identified.

In an additional aspect, the invention provides a method of determining the severity of SLE, including the steps of determining the extent to which one or more cells from a mammal suffering from SLE over express one or more genes selected from Table 4 as compared to one or more controls; and correlating the severity of the disease with the extent of over expression.

In still another aspect, the invention provides a method for diagnosing systemic lupus erythematosus (SLE) and/or determining the severity thereof, by providing a plurality of reference expression profiles, each associated with the presence or absence of SLE, and optionally with the severity of SLE; providing a subject expression profile generated from one or more cells or other sample from a mammalian subject; and selecting the reference expression profile most similar to the subject expression profile, to thereby diagnose the presence or absence of SLE in the subject, and optionally the severity of SLE in the subject; wherein, the subject expression profile and the reference expression profiles represent the level of expression of at least 1 gene listed in Table 4.

In a further aspect, the invention provides a method for monitoring disease state in an adult subject having systemic lupus erythematosus, by comparing the level of expression of at least one gene selected from Table 4 in one or more cells or other sample from the mammal at a first time point to the level of expression in one or more cells or other sample from the mammal at a second time point; and correlating a decrease in the degree of expression of genes in Table 4 at the second time point as compared to the first time point with an improvement in the mammals disease state, and/or correlating an increase in the degree of expression of genes in Table 4 at the second time point as compared to the first time point with an increase in the severity of the mammals disease state.

In a further aspect, the invention provides a diagnostic composition using nucleic acids selected from the group consisting of: a) at least 10 polynucleotides that hybridize under stringent conditions to a different gene of Table 1A and/or Table 1B; b) at least 375 polynucleotides that hybridize under stringent conditions to a different gene identified in Table 2A and/or Table 2B, c) at least 10 polynucleotides that hybridize under stringent conditions to a different gene of Table 3A and/or Table 3B; d) at least 2 polynucleotides that hybridize under stringent conditions to a different gene of Table 4; wherein the nucleic acids include at least 40% of the polynucleotides in the composition.

The diagnostic compositions of the inventions are useful in the diagnosis, prognosis and monitoring of SLE. Thus, the invention provides a method for detecting a systemic lupus erythematosus (SLE) profile in a suitable sample by contacting the suitable sample with a diagnostic composition described above under conditions that are favorable to the recognition of one or more nucleic acids identified in Table 1A, 1B, 2A, 2B, 2C, 3A, 3B or 4, by the polynucleotides and detecting the location and identity of nucleic acids recognized by the polynucleotides, thereby detecting the presence or absence of an SLE profile.

Another aspect of the invention is a screen to identify therapeutic agents that treat or ameliorate the symptoms of SLE. The method includes contacting the cell(s) previously identified as possessing this genotype with an effective amount of a potential agent and assaying for reversal or correction of the genotype of the progeny of the cell or the cell(s).

The present invention also includes compositions, kits and methods for identifying a human subject predisposed to systemic lupus erythematosus comprising determining the expression level one or more genes listed in Table 1A (160 down regulated genes) by at least 50% less; one or more genes listed in Table 1B (185 up regulated genes) by at least two-fold more than one or more controls; or combinations thereof. Another embodiment of the present invention includes comparing one or more reference expression profiles associated with likelihood that an SLE patient will develop renal disease to the expression profile obtained from a subject, wherein the subject expression profile and the reference profiles represent the level of expression of one or more genes listed in Table 1A and/or Table 1B. The expression profile may be obtained from one or more blood cells, e.g., peripheral blood mononuclear cells (PBMCs), monocytes, dendritic cells, immature neutrophils, mature neutrophils, granulocytes, B cells, T cells. The subject may even be a pediatric subject.

Another method for diagnosing systemic lupus erythematosus (SLE) includes determining alone or in combination the expression level of one or more genes selected from the 375 genes listed in Table 2A by at least 50% less and one or more genes selected from Table 2B to an extent at least two-fold more than one or more controls; wherein the presence or absence of the one or more genes are used to diagnose SLE.

Another method for diagnosing systemic lupus erythematosus (SLE) includes determining alone or in combination the expression level of one or more genes selected from the 10 genes listed in Table 3A by at least 50% less and one or more genes selected from Table 3B to an extent at least two-fold more than one or more controls; wherein the presence or absence of the one or more genes are used to diagnose SLE.

Another method for diagnosing systemic lupus erythematosus (SLE) includes determining whether a mammal contains one or more cells that express at least one gene selected from Table 4 to an extent at least two-fold greater than one or more controls and diagnosing the mammal as having SLE if the mammal contains the one or more cells, or as not having SLE if the cell is not identified.

A diagnostic array for systemic lupus erythematosus may include one or more of the following includes: at least 10 probes that hybridize under stringent conditions to one or more polynucleotides listed Table 1A and/or Table 1B; at least 375 probes that hybridize under stringent conditions to one or more polynucleotides listed in Table 2A and/or Table 2B; at least 10 probes that hybridize under stringent conditions to one or more polynucleotides listed Table 3A and/or Table 3B; and at least 2 probes that hybridize under stringent conditions to one or more polynucleotides listed Table 4, mixtures and combinations thereof. The polynucleotides may be probes, amplification primers, and/or are attached to an array in a pre-determined location.

A kit may also include an array with at least 10 probes that hybridize under stringent conditions to a polynucleotide of Table 1A and/or Table 1B; at least 375 probes that hybridize under stringent conditions to a polynucleotide of Table 2A and/or Table 2B; at least 10 probes that hybridize under stringent conditions to a polynucleotide of Table 3A and/or Table 3B; at least 2 probes that hybridize under stringent conditions to a polynucleotide of Table 4, mixtures and combinations thereof; and instructions for determining the identity of each polynucleotide and its location in the array.

Yet another invention includes a method for detecting a systemic lupus erythematosus (SLE) profile in a suitable sample by contacting the suitable sample under conditions that are favorable to the recognition of one or more nucleic acids identified in Table 1A, 1B, 2A, 2B, 2C, 3A, 3B or 4 and detecting the location and identity of nucleic acids recognized by the polynucleotides, thereby detecting the presence or absence of an SLE profile. The method may further includes the step of gathering a control diagnostic or a control profile selected from the group of indications consisting of a normal healthy control, an influenza infection, SLE subjects with renal involvement, and SLE subjects without renal involvement. A control is from the profile determined for a subject prior to therapeutic intervention. The method may also include a therapeutic intervention a candidate therapeutic agent selected from interferon alpha (IFN-α) inhibitors, corticosteroids, nonsteroidal immune suppressants, antimalarials, and nonsteroidal anti-inflamatory drugs.

Yet another method of the present invention is a computer implemented method for determining the genotype of a sample by obtaining a plurality of sample probe intensities from a patient suspected of having SLE; diagnosing systemic lupus erythematosus based upon the sample probe intensities; and calculating linear correlation coefficient between the sample probe intensities and reference probe intensities; and accepting the tentative genotype as the genotype of the sample if the linear correlation coefficient is greater than a threshold value. Probes for use with the invention may include one or more probes that hybridize under stringent conditions to a polynucleotide of Table 1A and/or Table 1B; one or more that hybridize under stringent conditions to a different nucleic acid molecule identified in Table 2A and/or Table 2B, one or more 10 probes that hybridize under stringent conditions to a polynucleotide of Table 3A and/or Table 3B; one or more probes that hybridize under stringent conditions to a polynucleotide of Table 4; and mixtures and combinations thereof. One specific gene may be C1 ORF 29 (Affymetrix ID 204439_at). Yet another specific examples of probes includes one or more genes selected from:

Accession No. Database Gene NM_019096 GenBank GTPBP2 AK002064.1 GenBank DNAPTP6 AF237762 GenBank GPR84 NM_004776.1 GenBank B4GALT5 AB045118.1 GenBank FRAT2 L13386.1 GenBank PAFAH1B1.

BRIEF DESCRIPTION OF THE FIGURES

For a more complete understanding of the features and advantages of the present invention, reference is now made to the detailed description of the invention along with the accompanying figures and in which:

FIG. 1 shows the correlation between SLEDAI index and the level of expression of three IFN-regulated genes newly associated with SLE: GTPBP2, PCTAIRE2BP and DNAPTP6.

FIG. 2 shows the correlation between SLEDAI index and the level of expression of four non IFN-regulated genes newly associated with SLE: GPR84, B4GALT5, FRAT2 and PAFAH1B.

 DETAILED DESCRIPTION OF THE INVENTION

While the making and using of various embodiments of the present invention are discussed in detail below, it should be appreciated that the present invention provides many applicable inventive concepts that can be embodied in a wide variety of specific contexts. The specific embodiments discussed herein are merely illustrative of specific ways to make and use the invention and do not delimit the scope of the invention.

To facilitate the understanding of this invention, a number of terms are defined below. Terms defined herein have meanings as commonly understood by a person of ordinary skill in the areas relevant to the present invention. Terms such as “a”, “an” and “the” are not intended to refer to only a singular entity, but include the general class of which a specific example may be used for illustration. The terminology herein is used to describe specific embodiments of the invention, but their usage does not delimit the invention, except as outlined in the claims.

The practice of the present invention will employ, unless otherwise indicated, conventional techniques of immunology, molecular biology, microbiology, cell biology and recombinant DNA, which are within the skill of the art. See e.g., Sambrook, Fritsch and Maniatis, MOLECULAR CLONING: A LABORATORY MANUAL, 2nd edition (1989); CURRENT PROTOCOLS IN MOLECULAR BIOLOGY (F. M. Ausubel et al. eds., (1987)); the series METHODS IN ENZYMOLOGY (Academic Press, Inc.): PCR 2: A PRACTICAL APPROACH (M. J. MacPherson, B. D. Hames and G. R. Taylor eds. (1995)), Harlow and Lane, eds. (1988) ANTIBODIES, A LABORATORY MANUAL and ANIMAL CELL CULTURE (R. I. Freshney, ed. (1987)).

As used herein, “amplification” refers to nucleic acid amplification procedures using primers and nucleic acid polymerase that generate multiple copies of a target nucleic acid sequence. Such amplification reactions are known to those of skill in the art, and include, but are not limited to, the polymerase chain reaction (PCR, see U.S. Pat. Nos. 4,682,195, 4,683,202 and 4,965,188), RT-PCR (see U.S. Pat. Nos. 5,322,770 and 5,310,652) the ligase chain reaction (LCR, see EP 0 320 308), NASBA or similar reactions such as TMA described in U.S. Pat. No. 5,399,491 and gap LCR (GLCR, see U.S. Pat. No. 5,427,202). If the nucleic acid target is RNA, RNA may first be copied into a complementary DNA strand using a reverse transcriptase (see U.S. Pat. Nos. 5,322,770 and 5,310,652).

As used herein, the terms “polynucleotide” and “nucleic acid” are used interchangeably to refer polynucleotides of any length, either deoxyribonucleotides or ribonucleotides or analogs (e.g., inosine, 7-deazaguanosine, etc.) thereof. “Oligonucleotides” refer to polynucleotides of less than 100 nucleotides in length, preferably less than 50 nucleotides in length, and most preferably about 10-30 nucleotides in length. Polynucleotides can have any three-dimensional structure and may perform any function, known or unknown. The following are non-limiting examples of polynucleotides: a gene or gene fragment (for example, a probe, primer, EST or SAGE tag), exons, introns, messenger RNA (mRNA), transfer RNA, ribosomal RNA, ribozymes, cDNA, recombinant polynucleotides, branched polynucleotides, plasmids, vectors, isolated DNA of any sequence, isolated RNA of any sequence, nucleic acid probes and primers. A polynucleotide can include modified nucleotides, such as methylated nucleotides and nucleotide analogs. If present, modifications to the nucleotide structure can be imparted before or after assembly of the polymer. The sequence of nucleotides can be interrupted by non-nucleotide components. A polynucleotide can be further modified after polymerization, such as by conjugation with a labeling component. The term also refers to both double- and single-stranded molecules. Unless otherwise specified or required, any embodiment of this invention that is a polynucleotide encompasses both the double-stranded form and each of two complementary single-stranded forms known or predicted to make up the double-stranded form.

As used herein, the term “gene” refers to a polynucleotide containing at least one open reading frame (ORF) that is capable of encoding a particular polypeptide or protein after being transcribed and translated, and to fragments of such polynucleotides. Any of the polynucleotides sequences described herein, or fragments thereof, may be used to identify larger fragments or full-length coding sequences of the gene with which they are associated. Methods of isolating larger fragment sequences are known to those of skill in the art. Tables 1A, 1B, 2A, 2B, 2C, 3A, 3B and 4 list the accession number and name of SLE-associated human genes, relevant sequences incorporated in their entirety (or portions thereof) herein by reference. As used herein, “gene” refers to the human gene referenced in the table, fragments and allelic variants thereof, as well as non-human homolog thereof. The accession number is linked to the sequences of the listed genes. These sequences can be used to identify allelic variants and non-human homologs by searching existing databases or by comparison to new sequences.

As used herein, the term a “gene product,” or “gene expression product” refer to the amino acid (e.g., peptide or polypeptide) generated when a gene is transcribed and translated.

The term “polypeptide” is used interchangeably with the term “protein” and in its broadest sense refers to a compound of two or more subunit amino acids linked by peptide bonds. A peptide of three or more amino acids is commonly called an oligopeptide if the peptide chain is short. If the peptide chain is long, the peptide is commonly called a polypeptide or a protein.

As used herein, the term “isolated” refers to the separation, isolation and/or purification away from constituents, cellular and otherwise, in which the polynucleotide, peptide, polypeptide, protein, antibody or fragment(s) thereof, are normally associated with in nature. In one aspect of this invention, an isolated polynucleotide is separated from the 3′ and 5′ contiguous nucleotides with which it is normally associated in its native or natural environment, e.g., on the chromosome. As is apparent to those of skill in the art, a non-naturally occurring polynucleotide, peptide, polypeptide, protein, antibody or fragment(s) thereof, does not require “isolation” to distinguish it from its naturally occurring counterpart. In addition, a “concentrated”, “separated” or “diluted” polynucleotide, peptide, polypeptide, protein, antibody or fragment(s) thereof, is distinguishable from its naturally occurring counterpart in that the concentration or number of molecules per volume is greater than “concentrated” or less than “separated” than that of its naturally occurring counterpart. A polynucleotide, peptide, polypeptide, protein, antibody or fragment(s) thereof, which differs from the naturally occurring counterpart in its primary sequence or for example, by its glycosylation pattern, need not be present in its isolated form since it is distinguishable from its naturally occurring counterpart by its primary sequence or, alternatively, by another characteristic such as glycosylation pattern. Thus, a non-naturally occurring polynucleotide is provided as a separate embodiment from the isolated naturally occurring polynucleotide.

A “probe” when used in the context of polynucleotide manipulation refers to a polynucleotide, preferably an oligonucleotide, that is provided as a reagent to detect a target polynucleotide, potentially present in a sample of interest, by hybridizing with the target. In one embodiment, a probe is a nucleic acid attached to a substrate (e.g., a microarray). In some instances, a probe may include a label, either before or subsequent to the hybridization reaction. Suitable labels include, but are not limited to radioisotopes, fluorochromes, chemiluminescent compounds, dyes and proteins, including enzymes.

A “primer” is an oligonucleotide, generally with a free 3′-OH group that binds to a target or “template” potentially present in a sample of interest by hybridizing with the target and, thereafter, promoting polymerization of a polynucleotide complementary to the target. A “polymerase chain reaction” (“PCR”) is a type of amplification reaction in which replicate copies are made of a target polynucleotide using a “pair of primers” or a “set of primers” consisting of an “upstream” and a “downstream” primer and a catalyst of polymerization, such as a DNA polymerase and, typically, a thermally-stable polymerase enzyme. Methods for PCR are well-known in the art, and taught, for example in “PCR: A PRACTICAL APPROACH” (M. MacPherson et al., IRL Press at Oxford University Press (1991)). All processes of producing replicate copies of a polynucleotide, such as PCR or gene cloning, are collectively referred to herein as “replication” or amplification.” A primer can also be used as a probe in hybridization reactions, such as Southern or Northern blot analyses. Sambrook et al., supra.

The term “cDNA” refers to complementary DNA that is initially made by reverse transcribing mRNA molecules present in a cell or organism into a complementary DNA with an enzyme such as reverse transcriptase.

As used herein, “expression” refers to the process by which polynucleotides are transcribed into mRNA and/or the process by which the mRNA transcript is subsequently translated into peptides, polypeptides or proteins. If the polynucleotide is derived from genomic DNA, expression may include splicing of the mRNA in a eukaryotic cell. “Differentially expressed” as applied to a gene, refers to the differential production of the mRNA transcribed from the gene and/or translated from the mRNA transcript into the protein product. The difference in gene expression between similar cell types from different subjects may be compared, or the difference in gene expression at a first and second time point in the same subject can be compared. In addition, the expression profile of a subject can be compared to a stored reference expression profile. A differentially expressed gene may be over-expressed or under-expressed as compared to the expression level of a normal or control cell. However, as used herein, differentially over-expressed is used to refer to a change in the expressed level of at least 2.0 fold, at least 2.25 fold, at least 2.5 fold or, at least 3 fold, at least 3.5 fold, at least 4 fold, at least 5-fold, or at least 10 fold, greater than that in the control cell, tissue or other biological sample. The 3004 transcripts disclosed herein were identified as being differentially expressed by statistical comparisons between the healthy and SLE groups using both parametric (Welch's approximate t-test) and non-parametric (Mann-Whitney U-test) methods (p<0.0001).

As used herein, a “level 2-fold more than ‘X” refers to the level is 2×. As used herein differentially under-expressed refers to expression at a level at least 50% less, at least 60%, at least 70%, at least 80%, at least 90% or at least 95% less than that in the control cell or tissue. For example, a “level 75% less than ‘X’” refers to a level that is 0.25×. The term “differentially expressed” also refers to nucleotide and/or protein sequences in a cell or tissue which are expressed where silent in a control cell or not expressed where expressed in a control cell.

As used herein, “solid phase support” or “solid support”, used interchangeably, is not limited to a specific type of support. Rather a large number of supports are available and are known to one of ordinary skill in the art. Solid phase supports include silica gels, resins, derivatized plastic films, glass beads, cotton, plastic beads, alumina gels, microarrays and chips. As used herein, “solid support” also includes synthetic antigen-presenting matrices, cells and liposomes. A suitable solid phase support may be selected on the basis of desired end use and suitability for various protocols. For example, for peptide synthesis, solid phase support may refer to resins such as polystyrene (e.g., PAM-resin obtained from Bachem Inc., Peninsula Laboratories, etc.), POLYHIPE® resin (obtained from Aminotech, Canada), polyamide resin (obtained from Peninsula Laboratories), polystyrene resin grafted with polyethylene glycol (TentaGel®, Rapp Polymere, Tubingen, Germany) or polydimethylacrylamide resin (obtained from Milligen/Biosearch, California).

A polynucleotide also can be attached to a solid support for use in high throughput screening assays. PCT WO 97/10365, for example, discloses the construction of high density oligonucleotide chips. See also, U.S. Pat. Nos. 5,405,783; 5,412,087; and 5,445,934. Using this method, the probes are synthesized on a derivatized glass surface also known as chip arrays. Photoprotected nucleoside phosphoramidites are coupled to the glass surface, selectively deprotected by photolysis through a photolithographic mask and reacted with a second protected nucleoside phosphoramidite. The coupling/deprotection process is repeated until the desired probe is complete.

“Hybridization” refers to a reaction in which one or more polynucleotides react to form a complex that is stabilized via hydrogen bonding between the bases of the nucleotide residues. The hydrogen bonding may occur by Watson-Crick base pairing, Hoogstein binding or in any other sequence-specific manner. The complex may include two strands forming a duplex structure, three or more strands forming a multi-stranded complex, a single self-hybridizing strand or any combination of these. A hybridization reaction may constitute a step in a more extensive process, such as the initiation of a PCR reaction or the enzymatic cleavage of a polynucleotide by a ribozyme.

Hybridization reactions can be performed under conditions of different “stringency”. As an example, a low stringency hybridization reaction is carried out at about 400 C in 10×SSC or a solution of equivalent ionic strength/temperature. A moderate stringency hybridization can be performed at about 500 C in 6×SSC, and a high stringency hybridization reaction can be performed at about 600 C in 1×SSC. Stringent conditions may also be achieved with the addition of destabilizing agents (e.g., formamide and the like). Preferably, stringent hybridization conditions are those commonly used in microarray experiments, such as hybridization in 100 mM MES pH 6.5-6.7, 1M [Na+], 20 mM EDTA, 0.01% Tween-20, 10% DMSO, 0.1 mg/ml herring sperm DNA, 0.5 mg/ml BSA at 45° C. for 16 hours, followed by one or more first washes in 6×SSPE, 0.01% Tween-20 at 25° C., and then one or more second washes in 100 mM MES pH 6.5-6.7, 0.1M [Na+], 0.01% Tween-20 at 50° C.

As used herein, the phrase “hybridizing specifically to” refers to the binding, duplexing or hybridizing of a molecule only to particular target nucleotide sequences under stringent conditions when one or more of the target sequences are present in a complex mixture, such as, but not limited to, total cellular RNA or mRNA. Some mismatch is allowed, so that a probe may hybridize specifically to both the target sequence (e.g., a portion of a sequence referred to in the Tables herein, or to an allelic variant thereof, or to a region of a non-human homolog that is conserved between species. It is apparent that the probe would need to be selected such that it would hybridize to a targeted region of allelic variant or non-human homolog that is highly homologous (e.g., at least 80% homologous) with the corresponding region of the human genes identified in the Tables herein. The genes listed in the Tables herein are human genes, however, probes and arrays can be prepared to specifically detect and quantify the expression of non-human homologs of the genes when the subject is a non-human mammal.

When hybridization occurs in an antiparallel configuration between two single-stranded polynucleotides, the reaction is called “annealing” and those polynucleotides are described as “complementary”. A double-stranded polynucleotide can be “complementary” or “homologous” to another polynucleotide, if hybridization can occur between one of the strands of the first polynucleotide and the second. “Complementarity” “Homology” (the degree that one polynucleotide is identical to another), is quantifiable in terms of the proportion of bases in opposing strands that are expected to form hydrogen bonding with each other, according to generally accepted base-pairing rules. “Homology” is the degree that one polynucleotide is identical to another.

A polynucleotide or polynucleotide region (or a polypeptide or polypeptide region) has a certain percentage (for example, 80%, 85%, 90% or 95% or greater) of “sequence identity” to another sequence when aligned and that percentage of bases (or amino acids) are the same in comparing the two sequences. This alignment and the percent homology or sequence identity can be determined using software programs known in the art, for example those described in CURRENT PROTOCOLS IN MOLECULAR BIOLOGY (F. M. Ausubel et al., eds., 1987) Supplement 30, section 7.7.18, Table 7.7.1. Default parameters may be used for alignment. One alignment program is BLAST, using default parameters. In particular, preferred programs are BLASTN and BLASTP, using the following default parameters: Genetic code=standard; filter=none; strand=both; cutoff=60; expect=10; Matrix=BLOSUM62; Descriptions=50 sequences; sort by=HIGH SCORE; Databases=non-redundant, GenBank+EMBL+DDBJ+PDB+GenBank CDS translations+SwissProtein+SPupdate+PIR. Details of these programs can be found at the following Internet address: www.ncbi.nlm.nih.gov/cgi-bin/BLAST.

An “effective amount” is an amount sufficient to effect beneficial or desired results such as prevention or treatment. An effective amount can be administered in one or more administrations, applications or dosages.

A “subject,” “individual” or “patient” is used interchangeably herein, which refers to a human that may be afflicted with SLE. In one embodiment, the human is a pediatric subject. By pediatric is meant less than 18 years of age. A “control” is an alternative subject or sample used in an experiment for comparison purpose. The term “control” as used herein in reference to determining whether a gene in Table 1A, Table 1B, Table 2A, Table 2B, Table 3A, Table 3B and/or Table 4, or an allelic variant thereof, is over or under expressed, refers to one or more negative controls, such that the control sample in which gene expression is analyzed is from one or more mammals that do not have SLE. Preferably, the control is from the same species as the subject. In addition, it is preferable to determine the levels of gene expression from the same cell type or types in both the subject and the controls. One or more controls may be used. If more than one control is used, the level expressed in the controls is preferably the average or median level of expression of a gene in the controls. Any number of controls may be used. In one example, at least 10, 20, 30, 40, or at least 50 controls are used. The level of gene expression in a control may be determined at or around the same time that the level of gene expression is determined in a subject. Alternatively, the level expression of a control may be previously determined and stored for subsequent comparison. In another embodiment, the expression level in a subject may be determined and stored prior to determination of the expression level in one or more controls.

The present invention relates to compositions and methods for diagnosis, prognosis, monitoring and treatment of human Systemic Lupus Erythematosus (SLE). In particular, the present invention provides a composition of agents that correlate to a signature profile of SLE. The composition is useful to determine the likelihood of developing renal involvement and to monitor the disease state or treatment efficacy in a SLE subject.

The inventors have identified 160 down-regulated genes (Table 1A) and 185 up-regulated genes (Table 1B) in SLE patients who are likely to develop renal involvement. These genes were identified by monitoring the expression of these genes in SLE patients over the course of approximately 3 years, and comparing the expression over this time period in patients that progressed to renal involvement to the expression in those patients who did not progress to renal involvement. As used herein, the term “renal involvement” refers to: a) the presence of blood, protein and/or casts by urine analysis; b) abnormal parameters of renal function; c) abnormal renal biopsy. Patients likely to develop renal disease can then be treated more aggressively than those patients who are unlikely to develop renal involvement.

Table 1A. 160 genes that are down-regulated in SLE patients who are likely to progress to renal involvement.

TABLE 1A Affy ID Common Genbank 241751_at OFD1 AW292752 227867_at AA005361 219700_at TEM7 NM_020405 203288_at KIAA0355 NM_014686 228512_at AW138833 211339_s_at ITK D13720.1 39582_at AL050166 205254_x_at TCF7 AW027359 227178_at AI652861 223450_s_at COG3 AF332595.1 217800_s_at NDFIP1 NM_030571 221897_at TRIM52 AA205660 214220_s_at ALMS1 AW003635 201153_s_at MBNL1 NM_021038 200000_s_at PRPF8 NM_006445 1729_at TRADD L41690 222125_s_at PH-4 BC000580.1 217838_s_at EVL NM_016337 227796_at FLJ34231 AW157773 201018_at EIF1A BE542684 222661_at FLJ10283 AA528017 229854_at OBSCN AW614056 218674_at FLJ13611 NM_024941 202880_s_at PSCD1 NM_004762 244375_at AW873606 217911_s_at BAG3 NM_004281 206695_x_at ZNF43 NM_003423 206095_s_at FUSIP1 NM_006625 235679_at AI598222 214202_at N21364 209105_at NCOA1 U19179.1 212370_x_at KIAA0592 AL080183.1 233186_s_at BANP AK001039.1 223002_s_at XRN2 AL136841.1 214946_x_at FLJ10824 AV728658 202355_s_at GTF2F1 BC000120.1 210686_x_at SLC25A16 BC001407.1 206385_s_at ANK3 NM_020987 227173_s_at BACH2 AW450901 205934_at PLCL1 NM_006226 222488_s_at DCTN4 BE218028 223440_at FLJ12076 BC004556.1 201662_s_at FACL3 D89053.1 203704_s_at RREB1 AW118862 202832_at GCC185 NM_014635 217952_x_at PHF3 AW189430 201084_s_at BTF NM_014739 204512_at HIVEP1 NM_002114 204739_at CENPC1 NM_001812 202171_at NM_007146.1 235756_at AW802645 204847_at ZNF-U69274 NM_014415 214847_s_at C6orf9 BG111168 200099_s_at AL356115 212842_x_at RANBP2L1 AL043571 235434_at SREBF2 AI984541 234788_x_at AK024819.1 217906_at KLHDC2 NM_014315 218348_s_at HSPC055 NM_014153 219394_at PGS1 NM_024419 213198_at AL117643.1 221492_s_at APG3 AF202092.1 208935_s_at LGALS8 L78132.1 235566_at AW591660 200033_at DDX5 NM_004396 229265_at SKI AA927480 236016_at AI702962 208760_at NM_003345.1 219988_s_at FLJ10597 NM_018150 213864_s_at NAP1L1 AI985751 203818_s_at SF3A3 NM_006802 214790_at SUSP1 AK001406.1 209033_s_at DYRK1A D86550.1 218098_at NM_006420.1 218079_s_at LZK1 NM_024835 217742_s_at WAC NM_016628 218852_at C14orf10 NM_017917 209034_at PROL2 AF279899.1 223140_s_at DDX36 AF217190.1 205270_s_at LCP2 NM_005565 210817_s_at NDP52 BC004130.1 217732_s_at ITM2B AF092128.1 225505_s_at C20orf81 NM_022760.1 228905_at BE672700 212675_s_at KIAA0582 AB011154.1 208933_s_at FLJ10359 AI659005 218346_s_at PA26 NM_014454 213295_at AA555096 228370_at SNURF BF114870 217945_at BTBD1 NM_025238 39650_s_at KIAA0435 AB007895 201556_s_at VAMP2 BC002737.1 218084_x_at FXYD5 NM_014164 226895_at GEMIN7 AWI34798 214792_x_at VAMP2 AI955119 235125_x_at AI078279 227345_at AI738556 221741_s_at dJ963E22.1 AL096828 231449_at AV700626 200613_at AP2M1 NM_004068 225703_at KIAA1545 AL583509 226951_at AI741415 204193_at CHKL NM_005198 211383_s_at KIAA0982 AL136827.1 201071_x_at SF3B1 NM_012433 214753_at AW084068 235444_at AI417897 224938_at AU144387 219966_x_at BANP NM_017869 60528_at PLA2G4B N71116 238378_at C14394 200912_s_at EIF4A2 NM_001967 226062_x_at FLJ11280 AB037811.1 226680_at PEGASUS BF056303 211185_s_at FLJ14753 AF130099.1 206015_s_at KIAA1041 NM_014947 225224_at DKFZP566G1424 AL034550 204791_at NR2C1 NM_003297 218552_at FLJ10948 NM_018281 202419_at FVT1 NM_002035 201166_s_at PUM1 NM_014676 211946_s_at KIAA1096 AL096857.1 209654_at KIAA0947 BC004902.1 218432_at FBXO3 NM_012175 212276_at LPIN1 D80010.1 220924_s_at SLC38A2 NM_018976 235848_x_at N35250 218754_at FLJ23323 NM_024654 229317_at BG231980 219711_at FLJ20070 NM_017652 201023_at TAF7 NM_005642 202969_at Y09216.1 203310_at STXBP3 NM_007269 212267_at KIAA0261 D87450.1 213567_at BF431965 202423_at RUNXBP2 NM_006766 231039_at BE549532 228423_at AI887898 244598_at W72060 202775_s_at SFRS8 NM_004592 202646_s_at NRAS AA167775 209481_at SNRK AF226044.1 226744_at MGC3329 BG284386 219817_at LOC51275 NM_016534 212042_x_at RPL7 BG389744 208113_x_at PABPC3 NM_030979 241825_at AI265967 218528_s_at RNF38 NM_022781 238829_at AI540253 222251_s_at GMEB2 AL133646.1 47773_at KIAA1332 AA836114 200858_s_at RPS8 NM_001012 209022_at STAG2 AK026678.1 212781_at RBBP6 AK026954.1 211666_x_at RPL3 L22453.1 224763_at AL137450.1 225958_at M6PR AI554106 222307_at LOC282997 AI695595 201653_at CNIH NM_005776 200847_s_at MGC8721 NM_016127

Table 1B. 185 genes that are up-regulated in SLE patients who are likely to progress to renal involvement.

TABLE 1B Affy ID Common Genbank 211643_x_at IGKC L14457.1 216853_x_at IGLJ3 AF234255.1 223565_at PACAP AF151024.1 214777_at IGKC BG482805 221286_s_at PACAP NM_016459 214768_x_at IGKC BG540628 216207_x_at IGKV1D-13 AW408194 215176_x_at IGKC AW404894 202411_at IFI27 NM_005532 209773_s_at RRM2 BC001886.1 211649_x_at L14456.1 224789_at KIAA1892 AL555107 217480_x_at IGKV1OR15- M20812 118 228377_at KIAA1384 AB037805.1 216401_x_at IGKV AJ408433 218585_s_at RAMP NM_016448 222528_s_at MSCP BG251467 205692_s_at CD38 NM_001775 201292_at TOP2A NM_001067.1 201890_at RRM2 NM_001034.1 202655_at ARMET NM_006010 204444_at KIF11 NM_004523 220306_at FLJ20202 NM_017709 223381_at CDCA1 AF326731.1 222529_at MSCP BG251467 205436_s_at H2AFX NM_002105 222411_s_at SSR3 AW087870 211647_x_at L14454.1 207434_s_at FXYD2 NM_021603 209340_at UAP1 S73498.1 202503_s_at KIAA0101 NM_014736 203554_x_at PTTG1 NM_004219 202083_s_at SEC14L1 NM_003003.1 218039_at ANKT NM_016359 222039_at LOC146909 AA292789 209030_s_at IGSF4 NM_014333.1 204170_s_at CKS2 NM_001827 224428_s_at CDCA7 AY029179.1 207165_at HMMR NM_012485 230645_at MGC20553 BF110588 226936_at BG492359 204767_s_at FEN1 BC000323.1 235113_at PPIL5 AA742244 208103_s_at ANP32E NM_030920 212021_s_at MKI67 BF001806 228273_at BG165011 209457_at DUSP5 U16996.1 202667_s_at HKE4 NM_006979 226085_at AA181060 217755_at HN1 NM_016185 206364_at KIF14 NM_014875 223086_x_at MRPL51 AF151075.1 223054_at DNAJB11 BC001144.1 200039_s_at PSMB2 NM_002794 202954_at UBE2C NM_007019 225686_at AK022820.1 202589_at TYMS NM_001071 205632_s_at PIP5K1B NM_003558 203046_s_at TIMELESS NM_003920 201204_s_at AI921320 213007_at FLJ10719 BG478677 220684_at TBX21 NM_013351 229893_at BF589413 204531_s_at BRCA1 NM_007295 200968_s_at PPIB NM_000942 224596_at CDW92 NM_022109.1 204007_at FCGR3A J04162.1 225171_at MacGAP AK002195.1 228607_at AI651594 229097_at AI813331 222532_at APMCF1 BF983948 225890_at C20orf72 AI678096 211048_s_at ERP70 BC006344.1 209152_s_at TCF3 M31523.1 225083_at LOC112495 AL536986 200967_at PPIB NM_000942 202082_s_at SEC14L1 NM_003003.1 208527_x_at HIST1H2BE NM_003523 222600_s_at FLJ10808 NM_018227.1 204559_s_at LSM7 NM_016199 224683_at FBXO18 BE961916 205967_at HIST1H4C NM_003542 213811_x_at TCF3 BG393795 218662_s_at HCAP-G NM_022346 224511_s_at MGC14353 BC006405.1 223252_at MGC2641 BC000755.1 207389_at GP1BA NM_000173 213688_at CALM1 N25325 219512_at C20orf172 NM_024918 204613_at PLCG2 NM_002661 213399_x_at RPN2 AI560720 219618_at IRAK4 NM_016123 218875_s_at FBXO5 NM_012177 203658_at SLC25A20 BC001689.1 200679_x_at HMGB1 BE311760 230942_at CKLFSF5 AI147740 222702_x_at CRIPT BF540954 208941_s_at SPS BC000941.1 225404_at LOC113444 R75637 202534_x_at DHFR NM_000791 233588_x_at HKE2 BE561798 202839_s_at NDUFB7 NM_004146 214798_at AW291664 222029_x_at HKE2 NM_014260.1 223191_at LOC51241 AF151037.1 207223_s_at ROD1 NM_005156 209709_s_at HMMR U29343.1 235353_at KIAA0746 AI887866 201277_s_at HNRPAB NM_004499 218357_s_at TIMM8B NM_012459 223370_at PLEKHA3 AF286162.1 203136_at RABAC1 NM_006423 226024_at MURR1 BG481459 224577_at KIAA1181 AB033007.1 204146_at PIR51 BE966146 225143_at EIF3S10 BG179991 229074_at EHD4 AI692267 201622_at p100 NM_014390 235341_at AL119957 212350_at TBC1D1 AB029031.1 217772_s_at MTCH2 NM_014342 218680_x_at HYPK NM_016400 229803_s_at NUDT3 AI347000 210224_at HLALS AF031469.1 213734_at WSB2 BG260658 222654_at FLJ20421 AW295105 234926_s_at C20orf43 AK026118.1 210378_s_at SSNA1 BC004118.1 207508_at ATP5G3 NM_001689 202779_s_at E2-EPF NM_014501 201202_at PCNA NM_002592 202461_at EIF2B2 NM_014239 213748_at KIAA0298 AW271713 225552_x_at AKIP AI991669 202070_s_at IDH3A NM_005530 202875_s_at PBX2 BE397715 224217_s_at FAF1 AF094700.1 222518_at ARFGEF2 NM_006420.1 213629_x_at MT1F BF246115 209477_at EMD BC000738.1 204079_at TPST2 NM_003595 203168_at CREBL1 NM_004381 203225_s_at FLJ11149 NM_018339 232103_at BPNT1 AI439695 211769_x_at TDE1 BC006088.1 219801_at MGC10520 NM_030580 218302_at PEN-2 NM_018468 227259_at CD47 BF439618 202110_at COX7B NM_001866 204226_at STAU2 NM_014393 206445_s_at HRMT1L2 NM_001536 218391_at EAP30 NM_007241 229067_at BF977829 203484_at SEC61G NM_014302 204033_at TRIP13 NM_004237 215691_x_at LOC51668 AV702994 209836_x_at MGC5178 AF060511.1 202347_s_at HIP2 AB022435.1 224160_s_at NPD002 BC001817.1 212119_at TC10 BF348067 209162_s_at PRPF4 U82756.1 225695_at BG497776 204048_s_at KIAA0680 NM_014721.1 235577_at AL036451 225100_at AK025697.1 201155_s_at MFN2 NM_014874 227133_at LOC139231 BE856541 202001_s_at NDUFA6 NM_002490 204282_s_at FARS1 NM_006567 209391_at DPM2 AF061729.1 223059_s_at MGC11034 BC004872.1 223179_at MGC10500 BC005009.1 212492_s_at KIAA0876 AW237172 225674_at BAP29 AK000878.1 218250_s_at CNOT7 NM_013354 226765_at SPTBN1 AA971514 233559_s_at FENS-1 AK023415.1 229021_at AI052257 225309_at PHE5A AL008582 63825_at MAGED1 AI557319 205072_s_at XRCC4 NM_022406 238909_at BF126155 227740_at KIS AW173222 227454_at KIAA1361 AB037782.1 208727_s_at CDC42 BC002711.1

Long term is has been found that out of 53 SLE patients identified using the present invention there was no Renal Disease (RD) in 10 patients; RD at blood draw=29 (one not used for RD analysis); no RD at blood draw, but RD developed since=7; no RD at blood draw, no follow-up=2; RD uncertain=5.

Using the PAM package (Prediction Analysis of Microarrays) [described in Tibshirani et. al. (2002) Diagnosis of multiple cancer types by shrunken centroids of gene expression. PNAS 99: 6567-6572], a minimum of 99 probe sets predicted from the patients who had no renal disease at the time of blood draw those who later developed renal disease with a 100% accuracy. 37 probe sets predicted later renal disease onset with 86% accuracy (6/7 patients predicted correctly). The Tables of genes disclosed herein list the name of the gene, and an annotation to the database where the sequence of the gene can be found. Determination of the level of gene expression can include determining the level of mRNA expression or the level of protein expression. Levels of expression can be based on de novo expression or on steady state levels of an mRNA transcript or protein. As used herein, detection of gene expression includes detection of expression of sequences identical to those in the referenced annotation and fragments thereof, as well as to allelic variants and homologs of the genes listed in the Tables and fragments thereof. Methods for determining the sequences of such allelic variants and homologs are known to those of skill in the art. Gene expression can be detected in cells, cell extracts, tissues and tissue extracts or other biological sample. Detection of gene expression in a tissue or tissue extract would be included in the meaning of determining whether one or more cells over or under-expresses a gene. In addition, it can be inferred that a subject contains at least one cell that over- or under-expresses a protein if increased or decreased levels of that protein are found extracellularly in biological samples (e.g., plasma, serum, urine, etc.) obtained from a subject. As used herein, if the tested cells, tissues, or other samples do not differentially express the relevant gene(s), then “the one or more cells are not identified.”

As used herein, a patient suspected of having SLE has at least 4 of the 11 criteria established by the ACR: malar rash, discoid rash, sensitivity to sun light, oral ulcers, arthritis, serositis, kidney and central nervous system inflammation, blood alterations, the presence of antinuclear antibodies (ANA), anti-dsDNA and anti-phospholipid/cardiolipin antibodies. One gene was found to be upregulated in 50/53 pediatric SLE patients, namely, C1 ORF 29 (Affymetrix ID 204439_at).

In one embodiment, the methods of the invention include determining whether or not the mammal contains one or more cells that express at least 1 gene listed in Table 1A (160 down regulated genes) by at least 75% less and/or at least 1 gene listed in Table 1B (185 up regulated genes) by at least four-fold more than one or more controls. In yet a further aspect, the method may include determining whether the patient has cells that differentially express at least 5, 10, 20, 30, 40, 50, 60, 70, 80, 90, 100, 110, 115, or at least 160 of the genes of Table 1A by at least 50% less or at least 75% less than the control, and/or at least 5, 10, 20, 30, 40, 50, 60, 70, 80, 90, 100, 110, 120, 130, 140, 150, 160, 170 or at least 185 genes of Table 1B by at least two-fold more, or at least four-fold more than the control.

As an alternative to comparing the level of expression of genes listed in Table 1A and/or 1B in a mammalian subject with the expression levels in one or more controls, the level of expression in the subject can be compared to a plurality of reference expression profiles associated with a likelihood of an SLE patient to develop renal involvement. Thus, the invention provides a method for predicting whether a mammal suffering from systemic lupus erythematosus (SLE) is likely to develop renal involvement, by providing a plurality of reference expression profiles, each associated with likelihood that an SLE patient will develop renal disease; providing a subject expression profile generated from one or more cells or other sample from a mammalian subject; and selecting the reference expression profile most similar to the subject expression profile, to associate a likelihood of the developing renal disease with the subject, wherein, the subject expression profile and the reference expression profiles represent the level of expression of at least one gene listed in Table 1A and/or Table 1B.

By expression profile is meant the level of expression of one or more of the human genes listed in the appropriate table herein, or of an allelic variant or homolog (i.e., a non-human homolog) of one of these genes. The level of expression can be represented in any convenient form. As a non-limiting example, the level of expression of a gene could be stored as a number representing the absolute or relative amount of label detected upon the binding of a labeled mRNA or cDNA to a probe on an immobilized surface, such as a microarray. The number could represent the level of expression of a gene detected in a single sample, or an average or median of the levels of expression detected in multiple samples. The expression profile may contain a value representing the expression of one gene, or a plurality of values representing the levels of expression of multiple genes (e.g., 160 genes listed in Table 1A and 185 genes listed in Table 1B).

A reference expression profile associates the level of expression of one or more genes with a further value, such as a likelihood of an SLE patient to develop renal disease, presence or absence of SLE, severity of SLE, absence or SLE coupled with the presence of flu or fibromyalgia, etc. The likelihood could be a percent likelihood, or simply “more likely that not”, or “not likely”, etc.

Methods of comparing reference expression profiles to a subject expression profile, and evaluating the similarity thereof, are known to those of skill in the art. We can use global gene expression arrays or custom gene expression arrays. There are several programs available to compare gene expression profiles, including GeneSpring and Spotfire. These programs use various statistical algorithms to compare expression patterns. Real time RT-PCR is a method that can be used to compare expression levels of transcripts in a subject's cells to a reference expression profile. For the purposes of determining the reference profile most similar to the subject expression profile, the expression of genes in the reference profile can be ignored where a corresponding level of gene expression in the subject is not determined.

Previously, Bennett et al. (2003) identified 210 up-regulated and 141 down-regulated genes in SLE patients as compared to controls. Similarly, Baechler et al. (2003) identified 47 down-regulated and 123 up-regulated genes in SLE patients as compared to controls. The inventors have broadened these studies of differential gene expression in SLE patients as compared to controls, and list 3004 SLE-associated genes in Tables 2A and 2B. Table 2A lists 1,751 genes that are down-regulated in SLE patients by at least one-fold as compared to the control, while Table 2B lists 1,253 genes that are up-regulated in SLE patients by at least one-fold as compared to controls.

TABLE 2A Affymetrix ID Common Genbank 90610_at LRRN1 AI654857 227878_s_at MGC10974 AI245026 223318_s_at MGC10974 BC004393.1 224664_at AK023981.1 226845_s_at LOC150678 AL036350 229874_x_at BE865517 229429_x_at AA863228 228987_at AA156238 226466_s_at MGC29729 AL544688 201216_at C12orf8 NM_006817 200792_at G22P1 NM_001469 228710_at BE905157 226413_at AA044705 227447_at PPAP2A AA525163 222448_s_at UMP-CMPK AF112216.1 222431_at SPIN AL136719.1 231896_s_at DENR AF103800.1 224688_at BE962299 225439_at CML66 BC000967.2 235014_at LOC147727 BF345728 210949_s_at EIF3S8 BC000533.1 200652_at SSR2 NM_003145 201064_s_at PABPC4 NM_003819 224479_s_at MRPL45 BC006235.1 64432_at LOC51275 W05463 229949_at DKFZP434A0131 AA554827 64418_at AI472320 243764_at AW085312 243154_at AA215381 231940_at KIAA1615 AI369933 215307_at AL109722.1 204793_at GASP NM_014710 228841_at AW299250 201054_at HNRPA0 BE966599 212846_at KIAA0179 D80001.1 209974_s_at BUB3 AF047473.1 202741_at PRKACB AA130247 227867_at AA005361 221648_s_at AK025651.1 221558_s_at LEF1 AF288571.1 219528_s_at BCL11B NM_022898 200965_s_at ABLIM1 NM_006720 205255_x_at TCF7 NM_003202 213193_x_at TRB@ AL559122 210915_x_at TRB@ M15564.1 211796_s_at TRB@ AF043179.1 211005_at LAT AF036906.1 204891_s_at LCK NM_005356 217950_at NOSIP NM_015953 205804_s_at DJ434O14.3 NM_025228 221601_s_at TOSO AI084226 204352_at TRAF5 NM_004619 203723_at ITPKB NM_002221 226272_at N25986 218918_at MAN1C1 NM_020379 203386_at TBC1D4 AI650848 218532_s_at FLJ20152 NM_019000 212538_at zizimin1 AL576253 201656_at ITGA6 NM_000210 205961_s_at PSIP2 NM_004682 203387_s_at TBC1D4 NM_014832 226247_at PLEKHA1 AI346026 212406_s_at MYT1 AB028973.1 205006_s_at NMT2 NM_004808 205005_s_at NMT2 AW293531 213564_x_at LDHB BE042354 201030_x_at LDHB NM_002300 212675_s_at KIAA0582 AB011154.1 209068_at HNRPDL D89678.1 223162_s_at AF116707.1 211929_at BE867771 235046_at AA456099 212641_at HIVEP2 AL023584 236198_at AW292872 212672_at U82828 223358_s_at AW269834 218490_s_at ZNF302 NM_018443 215785_s_at CYFIP2 AL161999.1 201892_s_at IMPDH2 NM_000884 206337_at CCR7 NM_001838 207339_s_at LTB NM_002341 227754_at AV700815 226635_at BG170478 218263_s_at LOC58486 NM_021211 203804_s_at OA48-18 NM_006107 213743_at CCNT2 BE674119 225180_at FLJ00166 W73788 225477_s_at MRPS25 AL138444 204773_at IL11RA NM_004512 217895_at FLJ20758 NM_017952 210858_x_at ATM U26455.1 208442_s_at ATM NM_000051 203408_s_at SATB1 NM_002971 241365_at AA002140 235085_at DKFZp761P0423 BF739767 224518_s_at MGC13105 BC006436.1 225159_s_at EG1 AW614072 227796_at FLJ34231 AW157773 236583_at AA286867 238043_at AI913123 225361_x_at LOC159090 AI341165 222673_x_at LOC159090 AI582192 226816_s_at KIAA1143 AI745170 213720_s_at SMARCA4 AI831675 232161_x_at AK025546.1 218003_s_at FKBP3 NM_002013 202591_s_at SSBP1 NM_003143 201855_s_at KIAA0431 NM_015251 212145_at MRPS27 D87453.1 240344_x_at AA424065 209153_s_at TCF3 M31523.1 224763_at AL137450.1 221726_at RPL22 BE250348 211938_at PRO1843 BF247371 217969_at C11orf2 NM_013265 217719_at EIF3S6IP NM_016091 218253_s_at LGTN NM_006893 217846_at QARS NM_005051 210027_s_at APEX1 M80261.1 212018_s_at DKFZP564M182 AK025446.1 201922_at YR-29 NM_014886 213864_s_at NAP1L1 AI985751 212967_x_at NAP1L1 AW148801 208752_x_at NAP1L1 AI888672 208754_s_at NAP1L1 AL162068.1 211954_s_at KPNB3 NM_002271.1 242292_at MGC34827 H12084 212690_at KIAA0725 AB018268.1 222824_at SEC61A2 AW237290 227261_at KLF12 AA020010 226254_s_at KIAA1430 AI912523 204890_s_at LCK U07236.1 230003_at AW779917 226148_at HSPC063 AU144305 225845_at BG253884 227087_at AA126419 226116_at BF064224 229145_at LOC119504 AA541762 227639_at AI275605 223269_at MGC3200 BC004355.1 229220_x_at AI249173 226641_at AU157224 228029_at KIAA1982 AW513477 227026_at HSMPP8 AI016714 225886_at AA156797 223282_at SDCCAG33 W60810 229891_x_at LSR7 AI630799 225629_s_at KIAA1538 AI669498 228760_at B2M AV725947 218699_at RAB7L1 BG338251 212918_at FLJ22028 BF219234 210116_at SH2D1A AF072930.1 212486_s_at N20923 202136_at BS69 BE250417 201877_s_at PPP2R5C NM_002719 224833_at ETS1 BE218980 224579_at AK024263.1 202365_at MGC5139 BC004815.1 209421_at MSH2 U04045.1 212313_at MGC29816 BC004344.1 209827_s_at IL16 NM_004513.1 204328_at EVER1 NM_007267 217729_s_at AES NM_001130 214032_at ZAP70 AI817942 222557_at STMN3 AL353715 227686_at MGC15763 BE465433 224060_s_at CGI-30 AF157319.1 212893_at DKFZP564I052 AL080063.1 225856_at BF512028 235587_at LOC202781 BG400596 228549_at AI491983 213539_at CD3D NM_000732.1 205831_at CD2 NM_001767 209670_at TRA@ M12959.1 210038_at AL137145 206761_at TACTILE NM_005816 225112_at BF245400 223287_s_at FOXP1 AF146696.1 217802_s_at NUCKS NM_022731 209711_at UGTREL7 N80922 208662_s_at TTC3 D84294.1 221509_at DENR AB014731.1 201753_s_at ADD3 NM_019903 218667_at PJA1 NM_022368 212917_x_at FLJ22028 BF219234 203497_at PPARBP NM_004774 212677_s_at AB011154.1 213958_at CD6 AW134823 202969_at Y09216.1 202968_s_at DYRK2 Y09216.1 209604_s_at GATA3 BC003070.1 212594_at PDCD4 N92498 212637_s_at WWP1 BF131791 201177_s_at UBA2 NM_005499 201486_at RCN2 NM_002902 205541_s_at GSPT2 NM_018094 206042_x_at SNURF NM_022804 201522_x_at SNRPN NM_003097 217988_at HEI10 NM_021178 217870_s_at UMP-CMPK NM_016308 214709_s_at KTN1 Z22551.1 200915_x_at KTN1 NM_004986 211727_s_at COX11 BC005895.1 203285_s_at HS2ST1 NM_012262 232004_at AK001846.1 202524_s_at SPOCK2 NM_014767 218545_at FLJ11088 NM_018318 32541_at calcineurin A catalytic S46622 subunit, calmodulin- dependent protein phosphatase catalytic subunit, CaM-PrP catalytic subunit 207000_s_at PPP3CC NM_005605 201092_at RBBP7 NM_002893 228370_at SNURF BF114870 205259_at NR3C2 NM_000901 223092_at ANKH AF274753.1 228843_at KIAA1337 AI824171 46665_at SEMA4C AI949392 203413_at NELL2 NM_006159 243363_at LEF1 AA992805 231798_at NOG AL575177 214081_at TEM7 AF070526.1 204612_at PKIA NM_006823 227670_at ZNF75A N74222 235725_at AW055351 229629_at AI923633 202491_s_at IKBKAP NM_003640 224759_s_at MGC17943 AK001731.1 222715_s_at AP1GBP1 BE856321 36553_at CRIP2 AA669799 229686_at LOC286530 AI436587 217286_s_at BC001805.1 218572_at HSPC134 NM_014169 209539_at ARHGEF6 D25304.1 209143_s_at CLNS1A AF005422.1 202757_at COBRA1 NM_015456 226496_at FLJ22611 BG291039 225457_s_at DKFZP564I1171 BF528646 229253_at CTMP AI184512 40189_at set M93651 200631_s_at SET NM_003011 213047_x_at SET AI278616 239122_at AI638155 235457_at AI769569 218428_s_at REV1L NM_016316 221691_x_at NPM1 AB042278.1 215136_s_at OIP2 AL050353.1 202144_s_at ADSL NM_000026 210097_s_at RARG-1 AF130102.1 202521_at CTCF NM_006565 218395_at FLJ13433 NM_022496 209422_at C20orf104 AL109965 228174_at AI832363 232909_s_at AU146870 229844_at AI699465 224838_at FOXP1 AK026898.1 224711_at AK025731.1 227979_at AU152162 222490_at RPC5 AK023160.1 225310_at AI928344 228007_at AL133101.1 227077_at BF432238 222317_at PDE3B AA888858 214582_at PDE3B NM_000753.1 212709_at NUP160 D83781.1 238523_at C16orf44 BF941204 206059_at ZNF91 NM_003430 216945_x_at PASK U79240.1 213534_s_at PASK D50925.1 206545_at CD28 NM_006139 202268_s_at APPBP1 NM_003905 241871_at CAMK4 AL529104 214369_s_at RASGRP2 AI688812 208206_s_at RASGRP2 NM_005825 228722_at HRMT1L1 AI928367 229322_at PPP2R5E BF529715 222895_s_at BCL11B AA918317 219571_s_at GIOT-3 NM_016265 208661_s_at TTC3 D84294.1 212332_at RBL2 NM_005611.1 201606_s_at PWP1 BE796924 221046_s_at HSPC135 NM_014170 218142_s_at LOC51185 NM_016302 212462_at MORF AF113514.1 221559_s_at MGC2488 BC000229.1 228049_x_at AA523172 237333_at SYNCOILIN T90771 227884_at AW296067 221499_s_at NPEPL1 AF008936.1 221264_s_at AF311304 NM_031214 213189_at DKFZp667G2110 AL574514 219700_at TEM7 NM_020405 216111_x_at hPMSR3 U38979 203579_s_at SLC7A6 NM_003983.1 233068_at AK023264.1 215275_at AW963138 202978_s_at ZF NM_021212.1 213666_at 6-Sep AK026589.1 217506_at H49382 202724_s_at FOXO1A NM_002015 218437_s_at LZTFL1 NM_020347 203939_at NT5E NM_002526 221645_s_at ZNF83 M27877.1 213064_at FLJ11806 N64802 203569_s_at OFD1 NM_003611 231853_at TUBD1 AK022771.1 222164_at AU145411 221593_s_at VRP BC001663.1 212773_s_at TOMM20-PENDING BG165094 219155_at RDGBB NM_012417 221588_x_at ALDH6A1 AF130089.1 217092_x_at AL031589 217266_at Z97353 217336_at dJ858M22.1 AL118510 221493_at TSPYL AL136629.1 212239_at M61906.1 209112_at CDKN1B BC001971.1 212920_at AV682285 209323_at PRKRIR AF081567.1 214800_x_at BTF3 R83000 200608_s_at RAD21 NM_006265 211698_at CRI1 AF349444.1 201153_s_at MBNL1 NM_021038 208753_s_at NAP1L1 BC002387.1 204528_s_at NAP1L1 NM_004537 209674_at CRY1 D83702.1 209064_x_at PAIP1 AL136920.1 208051_s_at PAIP1 NM_006451 209481_at SNRK AF226044.1 219029_at FLJ21657 NM_022483 212928_at KIAA0721 AL050331 217851_s_at C20orf45 NM_016045 218499_at MST4 NM_016542 201260_s_at SYPL NM_006754 214678_x_at ZFX R51161 213786_at TAX1BP1 AI935415 213750_at AA928506 208796_s_at CCNG1 BC000196.1 211761_s_at SIP BC005975.1 221931_s_at SEC13L AV701173 221589_s_at ALDH6A1 AF130089.1 217707_x_at SMARCA2 AI535683 206542_s_at SMARCA2 AV725365 219351_at SEDL NM_014563 209602_s_at GATA3 AI796169 231817_at KIAA1350 H25097 231124_x_at AI524095 224367_at DJ79P11.1 AF251053.1 229070_at MGC12335 AA470369 224196_x_at CGI-30 AF161492.1 223671_x_at CGI-30 AF248965.1 218005_at ZNF22 AA744771 205089_at ZNF7 NM_003416 202227_s_at BRD8 NM_006696 202983_at SMARCA3 AI760760 216221_s_at PUM2 D87078.2 203575_at CSNK2A2 NM_001896 228109_at AI912976 204917_s_at MLLT3 AV756536 235199_at AI969697 215440_s_at FLJ10097 AL523320 32042_at APK1 antigen S72904 235695_at AI051236 227158_at MGC9912 AU149257 212352_s_at TMP21 BE780075 226532_at AL563613 225716_at AI357639 223155_at DKFZP564D1378 AL136681.1 225036_at BF969806 223177_at MGC24302 AL515061 225509_at LOC56757 AI862477 218491_s_at THY28 NM_014174 232024_at HIMAP2 AI431931 210502_s_at PPIE AF042386.1 227637_at TFCP2 AV712694 226688_at DKFZp313N0621 AW003508 228856_at MGC2474 AV698149 212904_at KIAA1185 AB033011.1 201327_s_at CCT6A NM_001762 201209_at HDAC1 NM_004964 222103_at ATF1 AI434345 204155_s_at KIAA0999 AA044154 207996_s_at C18orf1 NM_004338 238649_at AA815089 230350_at AA503360 213090_s_at TAF4 AI744029 204552_at AA355179 228039_at AI765169 229614_at LOC162967 AI277652 201518_at CBX1 NM_006807 221514_at SDCCAG16 BC001149.1 225501_at MGC14797 AK027039.1 225030_at LOC91272 AA824341 209846_s_at BTN3A2 BC002832.1 204820_s_at BTN3A3 NM_006994 226339_at TRUB1 AW500239 217726_at COPZ1 NM_016057 215772_x_at SUCLG2 AL050226.1 212459_x_at SUCLG2 BF593940 214835_s_at SUCLG2 AF131748.1 228446_at KIAA2026 BF062203 226143_at RAI1 BF984830 204839_at POP5 NM_015918 235964_x_at SAMHD1 AA603344 224621_at MAPK1 AA129773 235529_x_at SAMHD1 BF437747 201637_s_at FXR1 NM_005087 201326_at CCT6A BE737030 201036_s_at HADHSC NM_005327 218373_at FTS NM_022476 208848_at ADH5 M30471.1 211105_s_at NFATC1 U80918.1 34210_at CDW52 N90866 202747_s_at ITM2A NM_004867 202746_at ITM2A; E25A AL021786 243968_x_at FCRH1 AI572979 217979_at NET-6 NM_014399 235372_at FREB AW575245 221969_at PAX5 BF510692 227224_at FLJ25604 AW003297 202732_at PKIG NM_007066 222285_at IGHG3 AW134608 227198_at AW085505 230509_at FLJ13952 BF528605 206983_at CCR6 NM_004367 226878_at AL581873 226550_at AI672159 227173_s_at BACH2 AW450901 222891_s_at BCL11A AI912275 226223_at PAWR AI189509 236280_at AI225238 210279_at GPR18 AF261135.1 204642_at EDG1 NM_001400 223477_s_at FLJ38663 AF061733.1 214779_s_at DJ1042K10.2 R51077 219315_s_at FLJ20898 NM_024600 212400_at AL043266 52940_at SIGIRR AA085764 214049_x_at CD7 AI829961 210463_x_at FLJ20244 BC002492.1 204153_s_at MFNG NM_002405 203314_at PGPL NM_012227 224910_at LOC91012 AL575747 219812_at MGC2463 NM_024070 210039_s_at PRKCQ L01087.1 210031_at CD3Z J04132.1 206118_at STAT4 NM_003151 235124_at BE502930 218538_s_at MRS2L NM_020662 230178_s_at BE672676 225816_at AV646599 240806_at AI939308 234875_at rpL7a AJ224082 234873_x_at rpL7a AJ224080 224841_x_at BF316352 224741_x_at BG329175 224719_s_at LOC113246 BG339653 207040_s_at ST13 NM_003932 216032_s_at SDBCAG84 AF091085.1 234512_x_at dJ486D24.1 AL136226 218495_at UXT NM_004182 200651_at GNB2L1 NM_006098 210908_s_at PFDN5 AB055804.1 207132_x_at PFDN5 NM_002624 222229_x_at AL121871 219762_s_at RPL36 NM_015414 216505_x_at AL118502 213687_s_at RPL35A BE968801 216570_x_at AL096829 216177_at RPL29 AW582267 214167_s_at RPLP0 AA555113 208826_x_at HINT1 U27143.1 207721_x_at HINT1 NM_005340 200826_at SNRPD2 NM_004597 210633_x_at KRT10 M19156.1 207023_x_at KRT10 NM_000421 221775_x_at RPL22 BG152979 208768_x_at RPL22 D17652.1 212039_x_at RPL3 BG339228 201217_x_at RPL3 NM_000967 211073_x_at RPL3 BC006483.1 211927_x_at BE963164 201254_x_at RPS6 NM_001010 211345_x_at EEF1G AF119850.1 200689_x_at EEF1G NM_001404 211710_x_at RPL4 BC005817.1 201154_x_at RPL4 NM_000968 217740_x_at RPL7A NM_000972 200725_x_at RPL10 NM_006013 213969_x_at RPL29 BF683426 212537_x_at RPL17 BE733979 212270_x_at RPL17 BG168283 200674_s_at RPL32 NM_000994 211542_x_at RPS10 BC004334.1 212191_x_at RPL13 AW574664 208929_x_at RPL13 BC004954.1 213588_x_at RPL14 AA838274 213890_x_at RPS16 AI200589 200949_x_at RPS20 NM_001023 214003_x_at RPS20 BF184532 213377_x_at C1S AI799007 212391_x_at RPS3A AI925635 201257_x_at RPS3A NM_001006 200926_at RPS23 NM_001025 200741_s_at RPS27 NM_001030 213347_x_at RPS4X AW132023 200763_s_at RPLP1 NM_001003 200716_x_at RPL13A NM_012423 212734_x_at RPL13 AI186735 213356_x_at HNRPA1 AL568186 213414_s_at RPS19 BE259729 202649_x_at RPS19 NM_001022 200869_at RPL18A NM_000980 200834_s_at RPS21 NM_001024 221476_s_at RPL15 AF279903.1 221475_s_at RPL15 NM_002948.1 213080_x_at RPL5 BF214492 211666_x_at RPL3 L22453.1 200937_s_at RPL5 NM_000969 200705_s_at EEF1B2 NM_001959 212933_x_at RPL13 AA961748 217807_s_at GLTSCR2 NM_015710 201258_at RPS16 NM_001020 214042_s_at RPL22 AW071997 211623_s_at FBL M30448.1 201592_at EIF3S3 NM_003756 208697_s_at EIF3S6 BC000734.1 200715_x_at RPL13A BC000514.1 201812_s_at TOM7 NM_019059 208635_x_at NACA BF976260 200735_x_at NACA NM_005594 213941_x_at RPS7 AI970731 212433_x_at RPS2 AA630314 209134_s_at RPS6 BC000524.1 216342_x_at AL121916 220960_x_at RPL22 NM_000983 214143_x_at DPP7 AI560573 200909_s_at RPLP2 NM_001004 201665_x_at RPS17 NM_001021 216520_s_at TPT1 AF072098 211943_x_at TPT1 AL565449 200781_s_at RPS15A NM_001019 200717_x_at RPL7 NM_000971 200936_at RPL8 NM_000973 212042_x_at RPL7 BG389744 215963_x_at Z98200 200858_s_at RPS8 NM_001012 214271_x_at RPL12 AA281332 201406_at RPL36A NM_021029 212578_x_at RPS17 BF026595 211942_x_at BF979419 211939_x_at BTF3 X74070.1 214351_x_at RPL13 AA789278 214394_x_at EEF1D AI613383 208887_at EIF3S4 BC000733.1 200823_x_at RPL29 NM_000992 203113_s_at EEF1D NM_001960 217379_at bA209A2.1 AL121934 200888_s_at RPL23 NM_000978 221488_s_at LOC51596 AF230924.1 214214_s_at MGC4189 AU151801 201268_at NME2 NM_002512 213762_x_at RBMX AI452524 208646_at RPS14 AF116710.1 220755_s_at C6orf48 NM_016947 202698_x_at COX4I1 NM_001861 217747_s_at RPS9 NM_001013 221494_x_at M9 AF085358.1 210501_x_at AF119846.1 212716_s_at M9 AW083133 213166_x_at BG332462 212995_x_at BG255188 201782_s_at AIP NM_003977 213239_at PIBF1 NM_006346.1 209066_x_at UQCRB M26700.1 205849_s_at UQCRB NM_006294 218764_at PRKCH NM_024064 205790_at SCAP1 NM_003726 213151_s_at CDC10 AU157515 201022_s_at DSTN NM_006870 205376_at INPP4B NM_003866 229872_s_at FLJ21308 AA532655 225391_at LOC93622 AL562398 200094_s_at EEF2 AI004246 200005_at EIF3S7 NM_003753 200093_s_at HINT1 N32864 200036_s_at RPL10A NM_007104 200081_s_at RPS6 BE741754 200089_s_at RPL4 AI953886 217256_x_at dJ507l15.1 Z98950 201561_s_at CLSTN1 NM_014944 225240_s_at BF435123 228853_at STYX AI652546 224604_at AK025703.1 224935_at EIF2S3 BE252813 222731_at ZDHHC2 AI814257 227630_at AW274445 223231_at CDA11 AF212250.1 225274_at BF247054 222391_at COL12A1; BA209D8.1; AL080250 DJ234P15.1 200850_s_at AHCYL1 NM_006621 208873_s_at DP1 BC000232.1 203485_at RTN1 NM_021136 208630_at HADHA BG472176 218592_s_at CECR5 NM_017829 221820_s_at MYST1 AK024102.1 218645_at ZNF277 NM_021994 202232_s_at GA17 NM_006360 205361_s_at PFDN4 AI718295 202231_at GA17 NM_006360 213581_at PDCD2 BF446180 201513_at TSN NM_004622.1 208319_s_at RBM3 NM_006743 226336_at PPIA T62044 215096_s_at AU145746 209009_at ESD BC001169.1 225918_at LOC146346 AI742940 218802_at FLJ20647 NM_017918 238026_at AI458020 218421_at CERK NM_022766 217906_at KLHDC2 NM_014315 211955_at KPNB3 NM_002271.1 211678_s_at ZNF313 AF090934.1 228131_at ASE-1 BG111047 204521_at HSU79274 NM_013300 235005_at MGC4562 AA192361 225583_at UXS1 AL573637 225405_at DKFZp762N1910 AI151434 225554_s_at ANAPC7 AA131793 224599_at CGGBP1 BE501318 224163_s_at DMAP1 AL136657.1 227580_s_at DKFZP434B0335 BE616972 224593_at DKFZp761B128 BE965646 225876_at DJ462O23.2 T84558 225732_at AU146850 232001_at AW193600 228077_at MGC3207 AK026666.1 218735_s_at AF020591 AA349848 213573_at KPNB1 AA861608 210555_s_at NFATC3 U85430.1 239278_at AI471969 228972_at PITPN AI028602 227585_at FLJ14600 AI359136 219627_at FLJ12700 NM_024910 221842_s_at ZNF131 BE972394 218531_at FLJ21749 NM_025124 218517_at Jade-1 NM_024900 227449_at AI799018 226611_s_at p30 AA722878 216241_s_at TCEA1 X57198.1 208667_s_at ST13 U17714.1 210017_at MALT1 AF070528.1 230224_at BF446577 229083_at AI672356 229590_at RPL13 AI369389 219293_s_at PTD004 NM_013341 214749_s_at FLJ20811 AK000818.1 225478_at MRPL19; RLX1; RPML15; BE783723 MRP-L15; KIAA0104; MGC20675; RPML15 216305_s_at KIAA0104 AC005034 228099_at MGC41917 AI805301 209841_s_at LRRN3 AL442092.1 226718_at KIAA1163 AA001423 208944_at TGFBR2 D50683.1 219025_at TEM1 NM_020404 227877_at AI991103 208895_s_at DDX18 BC003360.1 217019_at AL137162 203366_at POLG NM_002693 202577_s_at FLJ11126 BC005162.1 229064_s_at DSCR1L2 BE670097 228381_at AV716964 212508_at MOAP1 AK024029.1 202595_s_at LEPROTL1 AF161461.1 202165_at PPP1R2 NM_006241.1 200666_s_at DNAJB1 NM_006145 200811_at CIRBP NM_001280 212131_at DKFZP434D1335 AL117499.1 214482_at ZNF46 NM_006977.1 221519_at SHFM3 AF281859.1 214177_s_at HPIP AI935162 213340_s_at KIAA0495 AB007964.1 213598_at HSA9761 W87688 222010_at TCP1 BF224073 211988_at SMARCE1 NM_003079.1 224968_at MGC15407 AL518311 225396_at AI928212 225295_at KIAA1265 AB033091.1 202408_s_at PRPF31 NM_015629 229264_at AI675152 37590_g_at AL109698 212706_at CAPRI AB011110.2 218237_s_at SLC38A1 NM_030674 221897_at TRIM52 AA205660 228571_at BE963438 227701_at FLJ10188 AK024739.1 223444_at SENP7 AL136599.1 225892_at BF438417 225517_at PRO1914 AW236976 224643_at LOC133619 AL524045 224786_at HRIHFB2072 AL133580.1 227361_at HS3ST3B1 AA780067 226016_at CD47 AL118798 200802_at SARS NM_006513 219765_at FLJ12586 NM_024620 239049_at ROCK1 BF514509 220113_x_at POLR1B NM_019014 214594_x_at ATP8B1 BG252666 220071_x_at FLJ10460 NM_018097 210679_x_at BC002629.1 207730_x_at FLJ20700 NM_017932 206792_x_at PDE4C NM_000923 217679_x_at AI683552 214902_x_at AL080232.1 217713_x_at AA126763 208137_x_at MGC5384 NM_030972 204387_x_at MRP63 NM_024026 218155_x_at FLJ10534 AK026565.1 215359_x_at ZNF44 AI758888 219392_x_at FLJ11029 NM_018304 219678_x_at DCLRE1C NM_022487 215985_at HCGVIII-1 X92110.1 212503_s_at KIAA0934 N31807 205934_at PLCL1 NM_006226 204992_s_at PFN2 NM_002628 200912_s_at EIF4A2 NM_001967 200847_s_at MGC8721 NM_016127 212783_at RBBP6 AK026954.1 217627_at FLJ30921 BE515346 220760_x_at FLJ14345 NM_024733 236267_at JAZ BG178775 204635_at RPS6KA5 NM_004755 217446_x_at AL080160.1 218496_at RNASEH1 BG534527 211009_s_at ZNF271 AF159567.1 228393_s_at BF508739 228392_at BF508739 214662_at KIAA0007 D26488.1 222243_s_at TOB2 AB051450.1 222204_s_at RRN3 AL110238.1 201517_at NCBP2 BC001255.1 217776_at RDH11 AF167438.1 202060_at SH2BP1 NM_014633 208296_x_at GG2-1 NM_014350 216321_s_at NR3C1 X03348.1 213000_at KIAA0136 AP000693 202163_s_at CNOT8 NM_004779 201437_s_at EIF4E NM_001968 214751_at BE541042 212536_at ATP11B AB023173.1 203310_at STXBP3 NM_007269 213145_at BF001666 204075_s_at KIAA0562 NM_014704 218528_s_at RNF38 NM_022781 212267_at KIAA0261 D87450.1 217466_x_at L48784 218352_at RCBTB1 NM_018191 209096_at UBE2V2 U62136.2 201424_s_at CUL4A NM_003589 204831_at R59697 204291_at KIAA0335 NM_014803 203801_at MRPS14 NM_022100.1 221891_x_at HSPA8 AA704004 210338_s_at HSPA8 AB034951.1 208687_x_at HSPA8 AF352832.1 206976_s_at HSPH1 NM_006644 221744_at HAN11 AK026008.1 218565_at HSPC109 BG223334 226153_s_at CNOT6L AW514857 225314_at MGC45416 BG291649 205677_s_at DLEU1 NM_005887 214615_at P2Y10 NM_014499.1 216547_at AL353681 217347_at Z82202 201345_s_at UBE2D2 NM_003339 220054_at IL23A NM_016584 202774_s_at SFRS8 AI023864 201143_s_at EIF2S1 BC002513.1 214519_s_at RLN2 NM_005059.1 217394_at TRA@ AE000659 244798_at AA398139 213567_at BF431965 213035_at KIAA0379 AI081194 205571_at LIPT1 NM_015929 201272_at AKR1B1 NM_001628 234192_s_at AK026487.1 214855_s_at TULIP1 AL050050.1 202259_s_at CG005 NM_014887 212205_at H2AV BF343852 206445_s_at HRMT1L2 NM_001536 203259_s_at CGI-130 BC001671.1 219006_at HSPC125 NM_014165 211747_s_at LSM5 BC005938.1 203316_s_at SNRPE NM_003094 221564_at HRMT1L1 AL570294 225619_at FLJ30046 AV730849 57516_at MGC13138 AA746290 239231_at BE464819 202594_at LEPROTL1 NM_015344 228071_at hIAN7 AA858297 228916_at FLJ32343 BE857467 226529_at FLJ11273 BF513060 206989_s_at SFRS2IP NM_004719 222028_at ZNF45 AI967981 202042_at HARS NM_002109 202217_at C21orf33 NM_004649 55616_at CAB2 AI703342 228959_at AI676241 224755_at SMBP BE621524 212560_at AV728268 203509_at SORL1 NM_003105 228416_at AI149508 214220_s_at ALMS1 AW003635 225330_at MGC18216 AL044092 227844_at WBP3 AI089932 212873_at HA-1 BE349017 212655_at BDG-29 AB011151.1 238311_at BF940192 238156_at AW205632 222244_s_at FLJ20618 AK000749.1 221834_at SIAH1 U70056 213637_at ROK1 BE503392 204516_at SCA7 BG390306 225760_at KIAA1915 AI302244 206828_at TXK NM_003328 238929_at N30132 218425_at TRIAD3 BC000787.1 205684_s_at FLJ20686 NM_017925 208289_s_at EI24 NM_004879 225409_at AL529672 214949_at AL050136.1 218050_at BM-002 NM_016617 228680_at AW340096 213474_at FLJ32069 AI890903 231929_at AI458439 50376_at EZF-2 AI278629 229348_at N30416 208745_at ATP5L AA917672 217961_at FLJ20551 NM_017875 209382_at RPC62 U93867.1 230479_at AI872374 228291_s_at AI806322 218642_s_at MGC2217 NM_024300 203494_s_at KIAA0092 NM_014679 UNC84B; SUN2; 212144_at KIAA0668 AL021707 219698_s_at FLJ23017 NM_022840 215283_at U79248.1 228974_at AI816281 226350_at AU155565 64438_at FLJ22222 W19668 243495_s_at AL036450 232392_at SFRS3 BE927772 230820_at SMURF2 BF111169 228477_at AV707196 228993_s_at PDCD4 AV728606 226880_at NUCKS AL035851 230085_at AW263542 226085_at AA181060 201737_s_at TEB4 NM_005885 221419_s_at NM_013307 214182_at ARF6 AA243143 214041_x_at RPL37A BE857772 228204_at PSMB4 AA630330 204290_s_at ALDH6A1 NM_005589 229803_s_at NUDT3 AI347000 242104_at AA826288 223936_s_at FOXP1 BC005055.1 219343_at HARC NM_017913 218929_at CARF NM_017632 208184_s_at TMEM1 NM_003274 213152_s_at SRP46 AI343248 209657_s_at HSF2 M65217.1 204176_at AB026190 AA808694 212781_at RBBP6 AK026954.1 209712_at UGTREL7 N80922 202683_s_at RNMT NM_003799 213372_at LOC152559 AW173157 202853_s_at RYK NM_002958 217843_s_at HSPC126 NM_014166 210691_s_at SIP AF275803.1 203203_s_at HRB2 NM_007043 234975_at BE544748 216218_s_at PLCL2 AK023546.1 221268_s_at SGPP1 NM_030791 219767_s_at CRYZL1 NM_005111 212107_s_at DDX9 BE910323 211681_s_at LIM AF116705.1 206968_s_at NFRKB NM_006165 210257_x_at CUL4B AF212995.1 210568_s_at RECQL BC001052.1 209471_s_at FNTA L00634.1 202742_s_at PRKACB NM_002731 201151_s_at MBNL NM_021038.1 201946_s_at CCT2 AL545982 201635_s_at FXR1 AI990766 205882_x_at ADD3 AI818488 201752_s_at ADD3 AI763123 202479_s_at GS3955 BC002637.1 207627_s_at TFCP2 NM_005653 214359_s_at HSPCB AI218219 201988_s_at CREBL2 NM_001310.1 202089_s_at LIV-1 NM_012319 211937_at EIF4B NM_001417.1 216593_s_at PIGCP1 AB000359 213461_at AI800983 221423_s_at SMAP-5 NM_030799 201781_s_at AIP AL558532 217412_at TRA@ AE000659 238692_at FLJ33957 AL040935 213079_at DT1P1A10 AA223871 214666_x_at IREB2 AI204981 228725_x_at HRMT1L1 BF003112 227981_at AI741458 221214_s_at DKFZP586J1624 NM_015537 208657_s_at MSF AF142408.1 207556_s_at DGKZ NM_003646 225458_at DKFZP564I1171 BF528646 225628_s_at MLLT6 BE677453 222790_s_at FLJ11220 BE888593 221011_s_at LBH NM_030915 218127_at NFYB AI804118 218165_at FLJ11730 NM_022756 222789_at FLJ11220 BE888593 212697_at LOC162427 AL515874 212190_at SERPINE2 AL541302 213031_s_at FLJ14888 AF161382.1 203958_s_at KIAA0478 AI557467 213019_at RANBP6 AI123233 205324_s_at FTSJ1 NM_012280 218170_at CGI-111 NM_016048 203449_s_at TERF1 NM_017489 207845_s_at APC10 NM_014885 201017_at EIF1A BE542684 223189_x_at MLL5 AW082219 238761_at BE645241 222826_at PLDN BC004819.1 235369_at C14orf28 BF435952 203277_at DFFA NM_004401 231840_x_at AK000803.1 208740_at SAP18 NM_005870.2 218700_s_at RAB7L1 BC002585.1 217608_at FLJ36754 AW408767 204314_s_at CREB1 NM_004379 219056_at FLJ11712 NM_024570 229908_s_at CAB56184 BF338332 218149_s_at DKFZp434K1210 NM_017606 215460_x_at BRD1 AL080149.1 204520_x_at BRD1 NM_014577 212200_at POU2F1 AB014592.1 202832_at GCC185 NM_014635 201344_at UBE2D2 NM_003339.1 212244_at GRINL1A AI632774 225276_at AA143579 224482_s_at BC006240.1 214958_s_at EVIN1 AK021738.1 210622_x_at CDK10 AF153430.1 212259_s_at HPIP BF344265 226030_at ACADSB BE897866 203551_s_at COX11 NM_004375 210018_x_at MALT1 AB026118.1 225958_at M6PR AI554106 220206_at FLJ23151 NM_024772 205987_at CD1C NM_001765 216559_x_at AL050348 227221_at N36085 223283_s_at SDCCAG33 AF039698.1 224645_at EIF4EBP2 BG106477 217900_at FLJ10326 NM_018060 208669_s_at CRI1 AF109873.1 230779_at BF594371 227984_at BE464483 221757_at MGC17330 AC002073 221756_at MGC17330 AC002073 216033_s_at FYN S74774.1 210105_s_at FYN M14333.1 211989_at SMARCE1 NM_003079.1 53076_at B4GALT7 AI040029 222297_x_at RPL18 AV738806 212881_at PIASY NM_015897.1 208089_s_at TDRD3 NM_030794 207769_s_at PQBP1 NM_005710 219939_s_at D1S155E NM_007158 218277_s_at FLJ22060 NM_024612 203303_at TCTE1L NM_006520 203544_s_at STAM NM_003473 217833_at NM_006372.1 201366_at ANXA7 NM_004034 217340_at AL024509 203078_at CUL2 U83410.1 216348_at AL049693 216954_x_at ATP5O S77356.1 213287_s_at KRT10; K10; KPP X14487 208760_at NM_003345.1 231850_x_at KIAA1712 AB051499.1 203445_s_at OS4 NM_005730 203341_at CBF2 NM_005760 235432_at FLJ35693 BE865779 225635_s_at AK023696.1 211953_s_at KPNB3 NM_002271.1 239467_at AI806747 226680_at PEGASUS BF056303 226352_at BF447037 239300_at AI632214 233019_at AU145061 229384_at BE044193 206099_at PRKCH NM_006255 231713_s_at ELP2 NM_018255.1 228495_at AI880633 214061_at MGC21654 AI017564 221103_s_at FLJ11142 NM_018338 228171_s_at DKFZP434I216 AI056683 205087_at DKFZP566K023 NM_015485 209431_s_at ZNF278 AF254083.1 218919_at FLJ14007 NM_024699 212936_at DKFZP564D172 AI927701 212321_at SGPL1 AF144638.1 212824_at FUBP3 U69127.1 218637_at IMPACT NM_018439 235729_at FLJ14457 T93113 232167_at SLC2A11 BE675356 51200_at FLJ20850 AI744084 202880_s_at PSCD1 NM_004762 227811_at FGD3 AK000004.1 38892_at KIAA0240 D87077 209130_at SNAP23 BC003686.1 201833_at HDAC2 NM_001527 203182_s_at SRPK2 NM_003138 212640_at LOC201562 AV712602 203983_at TSNAX NM_005999 228548_at AU126086 226910_at LOC51122 AW008502 214857_at AL050035.1 228005_at BE677308 241299_at AI651969 202355_s_at GTF2F1 BC000120.1 65635_at FLJ21865 AL044097 220349_s_at FLJ21865 NM_022759 228662_at AI492369 218220_at C12orf10 NM_021640 201106_at GPX4 NM_002085 203025_at ARD1 NM_003491 218001_at MRPS2 NM_016034 218064_s_at NAKAP95 NM_014371 219628_at WIG1 NM_022470 49329_at FLJ14360 N38751 212946_at KIAA0564 AK025432.1 201307_at FLJ10849 AL534972 212607_at U79271.1 225244_at IMAGE3451454 AA019893 200957_s_at SSRP1 NM_003146 244716_x_at MGC23244 AI817976 218120_s_at HMOX2 D21243.1 226548_at LOC112868 AI935915 204333_s_at AGA NM_000027 217946_s_at SAE1 NM_016402 204985_s_at MGC2650 NM_024108 213109_at KIAA0551 N25621 210625_s_at AKAP1 U34074.1 210349_at CAMK4 L24959.1 203578_s_at SLC7A6 NM_003983.1 235603_at HNRPU N95466 212168_at RBM12 AB018308.1 204905_s_at EEF1E1 NM_004280 218100_s_at ESRRBL1 NM_018010 217956_s_at MASA NM_021204 205176_s_at ITGB3BP NM_014288 231234_at AV699565 204857_at MAD1L1 NM_003550 202139_at AKR7A2 NM_003689 219041_s_at RIP60 NM_014374 218518_at C5orf5 NM_016603 234970_at C14orf47 AI741469 212399_s_at KIAA0121 D50911.2 229814_at BG149337 217805_at ILF3 NM_004516 203179_at GALT NM_000155 212160_at XPOT AI984005 208738_x_at SMT3H2 AK024823.1 210970_s_at IBTK AF235049.1 234969_s_at EPC1 AK024117.1 234807_x_at AL121916 216383_at U52111 230490_x_at FLJ31034 AI866717 227964_at BF435621 226449_at FLJ36090 AI392933 222494_at C14orf116 AW051527 219100_at FLJ22559 NM_024928 225584_at BE880820 204000_at GNB5 NM_016194 200845_s_at PRDX6 NM_004905 227590_at BE501980 202261_at TCFL1 NM_005997 209702_at MGC5149 U79260.1 222517_at AP3M1 AA700485 228324_at BF031819 213416_at ITGA4 BG532690 237753_at AW504569 204651_at AW003022 202703_at DUSP11 NM_003584 204327_s_at ZNF202 N91520 201612_at ALDH9A1 NM_000696 205277_at PRDM2 NM_012231 234921_at AC007228 229725_at AV705292 239896_at AW190479 230489_at CD5 AI797836 227722_at AW043594 207283_at DKFZp547I014 NM_020217 228516_at CDAN1 AI122852 240413_at AI827431 220646_s_at KLRF1 NM_016523 205291_at IL2RB NM_000878 206785_s_at KLRC2 NM_002260 217143_s_at TRD@ X06557.1 216191_s_at TRA@ X72501.1 213830_at TRD@ AW007751 211597_s_at LAGY AB059408.1 207840_at BY55 NM_007053 214470_at KLRB1 NM_002258.1 207723_s_at KLRC3 NM_002261 213906_at MYBL1 AW592266 211685_s_at NCALD AF251061.1 209160_at AKR1C3 AB018580.1 219529_at CLIC3 NM_004669 230464_at EDG8 AI814092 205495_s_at GNLY NM_006433 218638_s_at SPON2 NM_012445 228788_at PPIL2 AA425358 225688_s_at FLJ21791 AK025444.1 205171_at PTPN4 NM_002830 206267_s_at MATK NM_002378 222000_at AI915947 212959_s_at MGC4170 AK001821.1 223228_at DKFZp761O17121 AL136553.1 219304_s_at SCDGF-B NM_025208 218568_at FLJ10842 NM_018238 226157_at TFDP2 AI569747 211984_at AI653730 201648_at AL039831 213618_at CENTD1 AB011152.1 229025_s_at FLJ25059 AW008627 227567_at AL524467 244024_at ZNF21 T67481 222146_s_at TCF4 AK026674.1 203753_at TCF4 NM_003199 212605_s_at W85912 203825_at BRD3 NM_007371 238656_at RAD50 AA877043 226062_x_at FLJ11280 AB037811.1 217810_x_at LARS NM_020117 218371_s_at PSPC1 NM_018282 218403_at HSPC132 NM_016399 218283_at SS18L2 NM_016305 214317_x_at RPS9 BE348997 216088_s_at PSMA7 AL078633 210574_s_at NUDC AF241788.1 200959_at FUS NM_004960 209538_at ZNF32 U69645.1 201509_at IDH3B NM_006899 201993_x_at HNRPDL NM_005463 203051_at KIAA0945 NM_014952 212826_s_at SLC25A6 AI961224 212085_at SLC25A6 AA916851 204102_s_at EEF2 NM_001961 242214_at RPS27A AU152194 235222_x_at AW675725 218573_at MAGEH1 NM_014061 218025_s_at PECI NM_006117 44040_at KIAA1940 AA524093 220036_s_at LIMR NM_018113 205192_at MAP3K14 NM_003954 239401_at AI668672 213263_s_at MAP3K12 AW025150 212814_at KIAA0828 AB020635.1 212922_s_at HSKM-B AF070592.1 201343_at UBE2D2 NM_003339.1 202693_s_at STK17A NM_004760.1 221963_x_at BE999967 218674_at FLJ13611 NM_024941 212297_at FLJ20986 BF218804 212588_at PTPRC AI809341 212132_at DKFZP434D1335 AL117499.1 208127_s_at SOCS5 NM_014011 204449_at PDCL NM_005388 215009_s_at U92014.1 211962_s_at ZFP36L1 X79067.1 213251_at AV712064 202250_s_at H326 NM_015726 201788_at RNAHP NM_007372 52731_at FLJ20294 AI359466 202692_s_at UBTF NM_014233 204559_s_at LSM7 NM_016199 235292_at BE875232 224919_at MRPS6 AL555227 223431_at FLJ11230 BC001818.1 200627_at TEBP BC003005.1 221507_at BG258639 208807_s_at CHD3 U91543.1 238520_at BF724270 226280_at LAMB1 AA133277 223455_at BG493862 212034_s_at EXO70 BE646386 227199_at AW027812 213815_x_at NY-REN-24 AI913329 202809_s_at FLJ21919 NM_023015 208503_s_at ODAG NM_021167 201837_s_at STAF65(gamma) AF197954.1 208424_s_at LOC57019 NM_020313 203073_at COG2 NM_007357 219603_s_at ZNF226 NM_015919 219443_at C20orf13 NM_017714 223983_s_at DKFZP762D096 BC004957.1 209565_at ZNF183 BC000832.1 205718_at ITGB7 NM_000889 223154_at MRPL1 AF212225.1 202208_s_at ARL7 BC001051.1 204918_s_at MLLT3 NM_004529 241525_at LOC200772 AV700191 40255_at DDX28 AC004531 225376_at LOC284734 BG480592 210418_s_at IDH3B AF023265.1 205055_at ITGAE NM_002208 224734_at HMGB1 BF673940 201417_at NM_003107.1 228239_at C21orf51 AA148789 201416_at NM_003107.1 227726_at MGC2647 BF057084 227640_s_at LOC222136 AI492167 228369_at TNRC5 AI262560 238768_at BF976290 228590_at AA045257 224718_at AK025731.1 225350_s_at FLJ13456 AV701229 222547_at FLJ20373 AL561281 217549_at AW574933 212886_at DKFZP434C171 AL080169.1 211208_s_at CASK AB039327.2 228155_at MGC4248 BF512388 224435_at MGC4248 BC005871.1 224709_s_at AF131831.1 228334_x_at KIAA1712 AI633734 204718_at EPHB6 NM_004445 226909_at KIAA1729 AW270138 225853_at GNPNAT1 BE789346 235170_at FLJ34299 T52999 221452_s_at MGC1223 NM_030969 222125_s_at PH-4 BC000580.1 218617_at IPT NM_017646 219335_at FLJ12969 NM_022838 206833_s_at ACYP2 NM_001108 207786_at MGC4663 NM_024514 212673_at METAP1 D42084.1 59999_at HIF1AN W37897 214259_s_at AKR7A2 AW074911 225967_s_at BF683512 49111_at N80935 43511_s_at AI201594 226656_at CRTAP AW024741 220307_at CD244 NM_016382 212224_at ALDH1A1 NM_000689.1 202331_at BCKDHA NM_000709 218271_s_at PARL NM_018622 212063_at CD44 BE903880 220750_s_at LEPRE1 NM_022356 206682_at HML2 NM_006344 219093_at FLJ20701 NM_017933 211734_s_at FCER1A BC005912.1 210982_s_at HLA-DRA M60333.1 208894_at HLA-DRA M60334.1 203932_at HLA-DMB NM_002118 203300_x_at AP1S2 NM_003916 214058_at M19720 203582_s_at RAB4A NM_004578 229588_at ERdj5 AA651899 218718_at PDGFC NM_016205 203581_at RAB4A BC002438.1 225553_at AL042817 212416_at SCAMP1 BF058944 229544_at AI690169 210567_s_at SKP2 BC001441.1 226692_at AI092931 224392_s_at OPN3 AF303588.1 225487_at DKFZp434C1714 AI720705 209263_x_at TM4SF7 BC000389.1 215088_s_at BG110532 203166_at CFDP1 NM_006324 226987_at HUMAGCGB W68720 234947_s_at FLJ13188 AK026630.1 225889_at MGC17922 BF475280 225268_at KPNA4 AK021602.1 222438_at HSPC126 AK001934.1 229355_at UBE2D3 AU150386 244743_x_at ZNF138 AA114243 221596_s_at DKFZP564O0523 AL136619.1 212774_at RP58 AJ223321 205474_at CRLF3 NM_015986 228961_at FLJ35954 R66534 225123_at BE883841 227636_at BG500677 226392_at AI888503 209330_s_at HNRPD D55674.1 201381_x_at SIP AF057356.1 242878_at BF061275 236814_at MDM4 AA745971 225116_at BG166310 224754_at BG431266 222024_s_at AKAP13 AK022014.1 230703_at AA001543 225956_at LOC153222 AL565238 201488_x_at KHDRBS1 BC000717.1 210162_s_at NFATC1 U08015.1 225916_at ZNF131 AA789302 231225_at AI568622 227402_s_at MGC14595 AI056895 225641_at MEF2D AI829724 222251_s_at GMEB2 AL133646.1 217952_x_at PHF3 AW189430 200977_s_at TAX1BP1 AF090891.1 217456_x_at HLA-E M31183.1 238431_at W68845 235424_at N66727 218905_at FLJ20530 NM_017864 227551_at CGI-67 BE856596 218539_at FBXO34 NM_017943 226924_at AI016355 226452_at PDK1 AU146532 204788_s_at PPOX NM_000309 227172_at LOC89894 BC000282.1 207734_at LAX NM_017773 242463_x_at MGC5384 AI620827 218911_at GAS41 NM_006530 235470_at LSM8 AI766279 227446_s_at BF445127 224364_s_at PPIL3 AF251049.1 212896_at KIAA0052 D29641.2 219644_at NY-REN-58 NM_016122 229312_s_at GKAP42 BF434321 225522_at AW628987 235309_at AA126311 216862_s_at MTCP1 Z24459 210212_x_at MTCP1 BC002600.1 214097_at RPS21 AW024383 213540_at HSD17B8 AL031228 220942_x_at E2IG5 NM_014367 212931_at TCF20 AB006630.1 205419_at EBI2 NM_004951 203380_x_at SFRS5 NM_006925 229854_at OBSCN AW614056 244534_at ZRF1 AI695743 41220_at KIAA0991 AB023208 241859_at BF593050 225346_at LOC80298 NM_025198.1 230739_at AI192379 230793_at FLJ20048 BE671038 227547_at AA824321 200597_at EIF3S10 BE614908 209106_at NCOA1 U19179.1 201876_at PON2 NM_000305 213725_x_at LOC283824 AI693140 203777_s_at RPS6KB2 NM_003952 202182_at GCN5L2 NM_021078 210653_s_at BCKDHB M55575.1 214252_s_at CLN5 AV700514 37549_g_at B1 U87408 226527_at AI569785 225549_at BF129093 212905_at CSTF2T BF732638 201139_s_at SSB NM_003142 223006_s_at C9orf5 BG402553 215690_x_at GPAA1 AL157437.1 211060_x_at GPAA1 BC006383.1 201618_x_at GPAA1 NM_003801 227049_at LOC147632 N21127 225494_at BG478726 224936_at EIF2S3 BE252813 225181_at ELD/OSA1 AK000921.1 219275_at PDCD5 NM_004708 218188_s_at TIMM13 NM_012458 223773_s_at LOC85028 AF277181.1 222848_at FKSG14 BC005400.1 218443_s_at DAZAP1 NM_018959 227451_s_at BF507383 228604_at AI805069 213507_s_at KPNB1 BG249565 235694_at N49233 227696_at AI701408 230248_x_at BE673759 218981_at DC11 NM_020186 204349_at CRSP9 BC005250.1 214658_at CGI-109 BG286537 201634_s_at CYB5-M NM_030579 206087_x_at HFE NM_000410 209751_s_at SEDLP AF291676.1 201653_at CNIH NM_005776 200902_at 15-Sep NM_004261 235802_at LOC122618 BE676703 229063_s_at FLJ14642 AI912238 228240_at KIAA1337 AW952320 203713_s_at LLGL2 NM_004524 212197_x_at KIAA0864 AB020671.1 239287_at AA769410 226959_at AL137430.1 224516_s_at HSPC195 BC006428.1 231927_at BF671883 225768_at NR1D2 AI761621 223248_at LOC83693 AK025626.1 226255_at ZNF-kaiso BE302089 225117_at DKFZP727C091 AL137317.1 230721_at LOC146174 BF436957 218375_at NUDT9 NM_024047 207922_s_at MAEA NM_005882 79005_at FLJ14251 AA504646 59433_at LOC286434 N32185 32540_at PPP3CC AI762547 220957_at CTAGE-1 NM_022663 216437_at AK024949.1 203999_at NM_005639.1 214923_at ATP6V1D AK001155.1 214775_at N4BP3 AW139448 216540_at TRA@ X61072.1 207152_at NTRK2 NM_006180 202488_s_at FXYD3 NM_005971 202709_at FMOD NM_002023 213919_at DNAJC4 AW024467 205189_s_at FANCC NM_000136 215766_at AL096729.1 213861_s_at DKFZP586D0919 N67741 207041_at MASP2 NM_006610 204665_at FLJ21168 NM_025073.1 215511_at TCF20 U19345.1 37793_r_at RAD51D AF034956 203788_s_at SEMA3C AI962897 216049_at RHOBTB3 AK023621.1 209436_at SPON1 AB018305.1 220721_at FLJ21941 NM_025040 208591_s_at PDE3B NM_000922 208588_at FKSG2 NM_021631 221508_at JIK AF181985.1 204605_at CGR19 NM_006568 206900_x_at ZNF253 NM_021047 201677_at ELF3 AI937543 206910_x_at HFL3 NM_005666 207105_s_at PIK3R2 NM_005027 217052_x_at AK024108.1 207972_at GLRA1 NM_000171 78330_at ZNF335 AA845577 220791_x_at SCN11A NM_014139 203874_s_at SMARCA1 NM_003069 222279_at AI669379 201630_s_at ACP1 NM_004300 216497_at AL390738 213285_at LOC161291 AV691491 208832_at E46L AW241832 209733_at AL034399 205042_at GNE NM_005476 220048_at EDAR NM_022336 219731_at NM_024343 216751_at AK024879.1 205554_s_at DNASE1L3 NM_004944 204151_x_at AKR1C1 NM_001353 212590_at RRAS2 BG168858 222099_s_at DKFZP434D1335 AW593859 47530_at NAP1 AA748492 218287_s_at EIF2C1 NM_012199 209574_s_at C18orf1 AI349506 221087_s_at APOL3 NM_014349 209338_at TFCP2 U03494.1 202264_s_at TOMM40 NM_006114 202183_s_at KIF22 NM_007317 205661_s_at PP591 NM_025207 205510_s_at FLJ10038 NM_017976 219164_s_at C14orf103 NM_018036 235956_at AI797063 221170_at HRH4 AF312230.1 212468_at SPAG9 AB011088.1 221681_s_at AF094508.1 221600_s_at PTD015 BC002752.1 205139_s_at UST NM_005715 215997_s_at CUL4B AV694732 215948_x_at ZNF237 AI522311 203321_s_at KIAA0863 NM_014913.1 201917_s_at FLJ10618 AI694452 202526_at MADH4 U44378.1 218268_at FLJ12085 NM_022771 213052_at PRKAR2A BF246917 201380_at CRTAP NM_006371 205232_s_at PAFAH2 U89386.1 222122_s_at THOC2 BG403671 217602_at PPIA AI191118 217322_x_at AL024509 208629_s_at HADHA BG472176 200767_s_at C9orf10 NM_014612 201299_s_at C2orf6 NM_018221 208325_s_at AKAP13 NM_006738 201462_at KIAA0193 NM_014766 203526_s_at APC M74088.1 213979_s_at CTBP1 AA053830 208264_s_at EIF3S1 NM_003758 215057_at U66046.1 215063_x_at AL390149.1 210573_s_at RPC62 BC004424.1 215718_s_at PHF3 AI949220 217795_s_at MGC3222 W74580 202366_at ACADS NM_000017 206499_s_at CHC1 NM_001269 233779_x_at AK022046.1 206158_s_at ZNF9 NM_003418 222151_s_at FLJ13386 AK023738.1 205839_s_at BZRAP1 NM_004758 219599_at PRO1843 NM_018507 202554_s_at GSTM3 AL527430 240015_at AI299467 216508_x_at WUGSC:H_NH0244E06.1 AC007277 201611_s_at ICMT NM_012405 240572_s_at BF436632 200664_s_at DNAJB1 BG537255 227558_at CBX4 AI570531 226883_at T89044 227100_at AI569766 204120_s_at ADK NM_001123 215146_s_at KIAA1043 AB028966.1 212528_at AL023553 206744_s_at ZNF237 NM_014242 220949_s_at MGC5242 NM_024033 202461_at EIF2B2 NM_014239 212025_s_at FLII U80184 210417_s_at PIK4CB U81802.1 204252_at CDK2 M68520.1 221207_s_at NBEA NM_015678 213929_at AL050204.1 203790_s_at UK114 N54448 201725_at C10orf7 NM_006023 201701_s_at PGRMC2 NM_006320 201342_at SNRPC NM_003093 202105_at IGBP1 NM_001551 215082_at BF973387 221874_at KIAA1324 AB037745.1 238952_x_at BF439163 232661_s_at DKFZP564O0523 AF161422.1 200751_s_at HNRPC BE898861 205408_at MLLT10 NM_004641 229903_x_at FLJ25070 AI632212 227665_at BE968576 200883_at UQCRC2 NM_003366 225184_at ELD/OSA1 AK000921.1 203552_at MAP4K5 AW298170 202213_s_at CUL4B AI650819 218129_s_at NFYB NM_006166 202663_at AI005043 224452_s_at MGC12966 BC006110.1 204638_at ACP5 NM_001611 220252_x_at FLJ11577 NM_025159 203375_s_at TPP2 NM_003291 201748_s_at SAFB NM_002967 224580_at AK024263.1 212302_at KIAA0252 D87440.1 203707_at ZNF263 NM_005741 219177_at BRIX NM_018321 218314_s_at FLJ10726 NM_018195 240830_at AI300126 220952_s_at PEPP2 NM_019012 201025_at IF2 NM_015904.1 202372_at RAB3-GAP150 BF240652 213063_at FLJ11806 N64802 238823_at WBP3 AA481044 205562_at RPP38 NM_006414 207445_s_at CCR9 AF145439.1 227616_at BG481877 220985_s_at DKFZP564A022 NM_030954 209835_x_at CD44 BC004372.1 204490_s_at CD44 M24915.1 206621_s_at WBSCR1 NM_022170 201055_s_at HNRPA0 NM_006805 200644_at MLP NM_023009 244443_at BE247450 244219_at AI613089 241845_at BE550501 229574_at HSU53209 AI268231 208705_s_at EIF5 AL080102.1 225250_at STIM2 AB040915.1 228259_s_at TIGA1 AW590155 208094_s_at MGC10471 NM_030818 202573_at CSNK1G2 AL530441 201544_x_at PABPN1 BF675004 212991_at FBXO9 AL137520.1 215722_s_at SNRPA1 AJ130971.1 206036_s_at REL NM_002908 202439_s_at IDS NM_000202 228909_at C21orf86 AW131553 218682_s_at SLC4A1AP NM_018158 207071_s_at ACO1 NM_002197 219163_at FLJ20079 NM_017656 39729_at NKEFB L19185 217144_at UBBP1 X04801 212430_at RNPC1 AL109955 213327_s_at USP12 AI820101 202782_s_at SKIP NM_016532 224653_at EIF4EBP2 BG106477 218570_at FLJ10450 NM_018095 222129_at MGC3035 AK026155.1 208995_s_at PPIG U40763.1 236001_at BF446940 230376_at AI339915 243973_at R67076 229861_at LOC117584 N66669 213879_at SMT3H2 AI971724 229204_at HP1-BP74 BE218428 227748_at LOC56267 AI971694 229436_x_at C6.1A AI672084 225164_s_at EIF2AK4 AB037759.1 220761_s_at JIK NM_016281 224151_s_at AK3L1 AF183419.1 221311_x_at DJ122O8.2 NM_020466 212878_s_at KNS2 AA284075 227712_at DJ122O8.2 AV682940 224533_s_at TRB@ M77498.1 203077_s_at MADH2 NM_005901 213370_s_at SFMBT BF057298 205372_at PLAG1 NM_002655 240102_at AW024095 222875_at DDX33 AI720923 223117_s_at FLJ20727 AW025093 203279_at EDEM NM_014674 219433_at BCoR NM_017745 219854_at ZNF14 NM_021030 219111_s_at MGC2835 NM_024072 212492_s_at KIAA0876 AW237172 238722_x_at AI460037 219045_at ARHF NM_019034 234294_x_at FLJ20085 AL390164.1 218131_s_at p66alpha NM_017660 226133_s_at EPI64 AW628835 217775_s_at RDH11 NM_016026 227319_at C16orf44 AI693862 226402_at AW055161 225982_at UBTF BG341575 202926_at NAG NM_015909 213034_at AB023216.1 214848_at U79277.1 230580_at AI222805 217704_x_at AI820796 244189_at AI888657 225155_at BG339050 235032_at HSPCB BG112118 202135_s_at ACTR1B NM_005735 204772_s_at TTF1 NM_007344 237143_at AW296162 212834_at ROK1 AK001652.1 223871_x_at ING5 BC005370.1 209788_s_at ARTS-1 AF183569.1 235459_at BF114745 215482_s_at EIF2B4 AJ011307 232103_at BPNT1 AI439695 225426_at PPP6C BF240782 229410_at AI659219 224331_s_at MRPL36 AB049654.1 222530_s_at MKKS AF275813.1 225795_at LOC91689 AV751709 216591_s_at CII-3 AF080579 210131_x_at SDHC D49737.1 202004_x_at SDHC NM_003001 225472_at BAT4 AF129756 225717_at KIAA1715 AI814587 220083_x_at UCHL5 NM_016017 214037_s_at JM1 BF224247 229905_at N92500 201563_at SORD L29008.1 226224_at DKFZp434D1428 AI798846 227410_at FLJ90022 AW264102 226100_at MLL5 AI762876 226712_at BF206389 205926_at WSX1 NM_004843 212052_s_at KIAA0676 AB014576.1 225341_at LOC80298 NM_025198.1 238077_at MGC27385 T75480 227313_at MGC40499 AI870866 214527_s_at PQBP1 AB041836.1 221893_s_at MGC20727 N32831 234672_s_at FLJ10407 AL354612.1 229143_at CNOT3 AW449353 225455_at STAF42 AI760812 226665_at DKFZp564C236 AI986239 222315_at AW972855 218150_at ARL5 NM_012097 238155_at AI638235 230790_x_at C14orf116 AI589978 227001_at AI096706 203243_s_at LIM NM_006457 218610_s_at FLJ11151 NM_018340 202901_x_at CTSS BC002642.1 210968_s_at RTN4 AF333336.1 214674_at USP19 AW451502 204949_at ICAM3 NM_002162 228108_at AW274846 227375_at DKFZP566D1346 AA152232 219125_s_at LOC55974 NM_018845 218411_s_at MBIP NM_016586 203818_s_at SF3A3 NM_006802 214672_at KIAA0998 AB023215.1 228988_at ZNF6 AU157017 235024_at Jade-1 AI868315 230598_at KIAA1387 BF063821 225065_x_at MGC40157 AI826279 224871_at AK025464.1 218992_at MDS030 NM_018465 218201_at NDUFB2 NM_004546 217801_at ATP5E NM_006886 202000_at NDUFA6 BC002772.1 214334_x_at DAZAP2 N34846 230452_at SLC20A1 AI939400 209899_s_at SIAHBP1 AF217197.1 200773_x_at PTMA NM_002823 231812_x_at PHAX AK023255.1 227181_at AI203021 204045_at TCEAL1 NM_004780 216028_at DKFZP564C152 AL049980.1 208971_at UROD M14016.1 227035_x_at LOC222136 BE670798 230274_s_at RAB5EP BF589088 209375_at XPC D21089.1 200962_at AI348010 217928_s_at C11orf23 NM_018312 226951_at AI741415 204995_at CDK5R1 AL567411 228380_at BE551193 212626_x_at HNRPC AA664258 233186_s_at BANP AK001039.1 225226_at FLJ14743 AB051548.1 210829_s_at AF077048.1 214435_x_at RALA NM_005402.1 211656_x_at HLA-DQB1 M32577.1 204481_at BRPF1 NM_004634 210514_x_at HLA-G AF226990.2 223076_s_at FLJ20303 BC001041.1 211990_at HLA-DPA1 M27487.1 227814_at MGC12928 AA789329 212828_at AL157424.1 209174_s_at ANXA6 BC000978.2 224721_at FLJ12519 AI917328 235300_x_at ZNF363 AW236209 223443_s_at FLJ32065 BC003669.1 217552_x_at CR1 AI432713 202922_at GCLC BF676980 202537_s_at DKFZP564O123 AF151842.1 223027_at SNX9 BF972871 227562_at AI335267 49878_at PEX16 AA523441 228822_s_at AI435036 224681_at GNA12 BG028884 224569_s_at BG388615 207434_s_at FXYD2 NM_021603 219506_at FLJ23221 NM_024579 233605_x_at AK022050.1 241962_at AI332476 227546_x_at AKIP AI738987

TABLE 2B Table 2B Affymetrix ID Common Genbank AFFX- STAT1 M97935 HUMISGF3A/M97935_MB_at AFFX- STAT1 M97935 HUMISGF3A/M97935_MA_at AFFX- STAT1 M97935 HUMISGF3A/M97935_3_at 200887_s_at STAT1 NM_007315 44673_at SN N53555 242625_at cig5 AW189843 213797_at cig5 AI337069 219863_at CEB1 NM_016323 204747_at IFIT4 NM_001549 229450_at AI075407 226702_at LOC129607 AI742057 214453_s_at IFI44 NM_006417.1 204439_at C1orf29 NM_006820 202086_at MX1 NM_002462 208436_s_at IRF7 NM_004030 205483_s_at G1P2 NM_005101 222154_s_at DKFZP564A2416 AK002064.1 204994_at MX2 NM_002463 227609_at EPSTI1 AA633203 218400_at OAS3 NM_006187 202145_at LY6E NM_002346 204972_at OAS2 NM_016817 213294_at AV755522 210797_s_at OASL AF063612.1 230036_at FLJ39885 BE669858 226603_at FLJ39885 BE966604 223220_s_at BAL AF307338.1 205552_s_at OAS1 NM_002534 203153_at IFIT1 NM_001548 228617_at AA142842 227807_at AI738416 202446_s_at PLSCR1 AI825926 219211_at USP18 NM_017414 228607_at AI651594 209417_s_at IFI35 BC001356.1 235276_at EPSTI1 AA781795 226757_at IFIT2 AA131041 205660_at OASL NM_003733 214059_at IFI44 BE049439 213293_s_at TRIM22 AA083478 216565_x_at AL121994 212203_x_at IFITM3 BF338947 217933_s_at LAP3 NM_015907 202411_at IFI27 NM_005532 219352_at FLJ20637 NM_017912 225415_at LOC151636 AA577672 218986_s_at FLJ20035 NM_017631 202869_at OAS1 NM_016816 204415_at G1P3 NM_022873 236285_at AI631846 200923_at LGALS3BP NM_005567 228531_at FLJ20073 AA741307 219691_at FLJ20073 NM_017654 225291_at OLD35 AI967971 219356_s_at HSPC177 NM_016410 218085_at HSPC177 NM_015961 219209_at MDA5 NM_022168 203964_at NMI NM_004688 204211_x_at PRKR NM_002759 218543_s_at FLJ22693 NM_022750 225344_at ERAP140 AL035689 209593_s_at TOR1B AF317129.1 228152_s_at FLJ31033 AK023743.1 200986_at SERPING1 NM_000062 225929_s_at KIAA1554 AI954660 239979_at BE645480 232375_at AI539443 209969_s_at STAT1 BC002704.1 201786_s_at ADAR NM_001111 228230_at PRIC285 AL121829 201649_at UBE2L6 NM_004223 213361_at PCTAIRE2BP AW129593 201641_at BST2 NM_004335 203236_s_at LGALS9 NM_009587 242234_at HSXIAPAF1 AI859280 231577_s_at GBP1 AW014593 202269_x_at GBP1 BC002666.1 202307_s_at TAP1 NM_000593 202270_at GBP1 NM_002053 225636_at STAT2 H98105 205569_at LAMP3 NM_014398 206133_at HSXIAPAF1 NM_017523 217502_at IFIT2 BE888744 209762_x_at SP110 AF280094.1 208012_x_at SP110 NM_004509 214022_s_at MGC27165 AA749101 201601_x_at IFITM1 NM_003641 238327_at ECGF1 AI962367 204858_s_at ECGF1 NM_001953 205241_at SCO2 NM_005138 225245_x_at H2AFJ BG386566 224301_x_at H2AFJ BC003602.1 217165_x_at MT1F M10943 208581_x_at MT1X NM_005952 204326_x_at MT1L NM_002450 216336_x_at AL031602 212185_x_at MT2A NM_005953.1 212859_x_at MT1E BF217861 211456_x_at AF333388.1 222483_at MGC4342 AW664179 202284_s_at CDKN1A NM_000389 213988_s_at SAT BE971383 201315_x_at IFITM2 NM_006435 222986_s_at SCOTIN BC001463.1 208751_at NAPA BC001165.1 206491_s_at NAPA NM_003827 224701_at KIAA1268 AA056548 205099_s_at CCR1 NM_001295 219062_s_at FLJ20281 NM_017742 203596_s_at RI58 NM_012420 203595_s_at RI58 N47725 205875_s_at TREX1 NM_016381 230314_at AW014557 223298_s_at NT5C3 AF312735.1 231455_at AA768888 202430_s_at PLSCR1 NM_021105 203882_at ISGF3G NM_006084 211012_s_at PML BC000080.1 202068_s_at LDLR NM_000527 242020_s_at AI925506 232666_at OAS3 R13458 225076_s_at KIAA1404 AA150460 218943_s_at RIG-I NM_014314 221816_s_at NY-REN-34 BF055474 241801_at AW084937 33304_at HEM45 U88964 204698_at ISG20 NM_002201 202863_at SP100 NM_003113 235508_at AW291023 225931_s_at KIAA1554 AI954660 208087_s_at ZBP1 NM_030776 231769_at FBXO6 AF129536.1 215617_at AU145711 226103_at nexilin AF114264.1 233880_at KIAA1554 AL161961.1 239988_at AA708470 224806_at BE563152 200815_s_at PAFAH1B1 L13386.1 241812_at AV648669 204224_s_at GCH1 NM_000161 222816_s_at FLJ20281 BE676543 241916_at AI984040 228628_at AI478268 204713_s_at F5 AA910306 203258_at DRAP1 NM_006442 232517_s_at PRIC285 AL121829 208912_s_at CNP BC001362.1 226390_at STARD4 AA628398 232787_at AK023724.1 208392_x_at SP110 NM_004510 243934_at AW139261 213497_at DKFZP586C1619 AL050374.1 222512_at NYREN18 AF300717.1 204533_at CXCL10 NM_001565 212845_at KIAA1053 AB028976.1 207614_s_at CUL1 NM_003592 210524_x_at AF078844.1 204745_x_at MT1G NM_005950 38487_at KIAA0246 D87433 200839_s_at CTSB NM_001908 211135_x_at LILRB3 AF009644.1 210225_x_at LILRB3 AF009635.1 207697_x_at LILRB2 NM_005874 243099_at NFAM1 AW271350 202897_at PTPNS1 AB023430.1 229770_at FLJ31978 AI041543 217977_at SEPX1 NM_016332 207677_s_at NCF4 NM_013416 205627_at CDA NM_001785 205147_x_at NCF4 NM_000631 218454_at FLJ22662 NM_024829 228497_at FLIPT1 AI279062 201118_at PGD NM_002631 205863_at S100A12 NM_005621 204959_at MNDA NM_002432 203765_at GCA NM_012198 212602_at ALFY AI806395 207275_s_at FACL1 NM_001995 201963_at FACL2 NM_021122 205568_at AQP9 NM_020980 204924_at TLR2 NM_003264 205119_s_at FPR1 NM_002029 214438_at HLX1 M60721.1 212268_at SERPINB1 NM_030666.1 203167_at TIMP2 NM_003255 221210_s_at C1orf13 NM_030769 217835_x_at C20orf24 NM_018840 200663_at CD63 NM_001780 226275_at AI188653 222934_s_at CLECSF9 BC000715.1 221676_s_at CORO1C BC002342.1 214875_x_at APLP2 AW001847 208702_x_at APLP2 BC000373.1 211404_s_at APLP2 BC004371.1 208918_s_at FLJ13052 BC001709.1 223553_s_at FLJ22570 BC004564.1 208919_s_at FLJ13052 BC001709.1 228499_at PFKFB4 AL038787 216041_x_at GRN AK023348.1 200678_x_at GRN NM_002087 211284_s_at GRN BC000324.1 205237_at FCN1 NM_002003 205936_s_at HK3 NM_002115 202096_s_at BZRP NM_000714 201482_at QSCN6 NM_002826 240862_at RASGRP4 AA923524 224818_at BE622952 205726_at DIAPH2 NM_006729 213241_at AF035307.1 217763_s_at RAB31 NM_006868 217762_s_at RAB31 BE789881 212807_s_at SORT1 BE742268 201463_s_at TALDO1 NM_006755 236172_at AW206817 220001_at PADI4 NM_012387 227929_at AU151342 229101_at AI963142 207809_s_at ATP6IP1 NM_001183 200661_at PPGB NM_000308 209930_s_at NFE2 L13974.1 223502_s_at TNFSF13B AF134715.1 223501_at AW151360 216950_s_at X14355.1 214511_x_at L03419.1 219403_s_at HPSE NM_006665 204204_at SLC31A2 NM_001860 222670_s_at MAFB AW135013 218559_s_at MAFB NM_005461 206715_at TFEC NM_012252 210785_s_at ICB-1 AB035482.1 207571_x_at C1orf38 NM_004848 218773_s_at PILB NM_012228 207674_at FCAR NM_002000 201642_at IFNGR2 NM_005534 233587_s_at AK022852.1 228846_at AW071793 222496_s_at FLJ20273 AW241742 217738_at PBEF BF575514 205681_at BCL2A1 NM_004049 215001_s_at GLUL AL161952.1 206584_at LY96 NM_015364 200648_s_at GLUL NM_002065 202912_at ADM NM_001124 203574_at NFIL3 NM_005384 210592_s_at M55580.1 216243_s_at IL1RN BE563442 212659_s_at IL1RN AW083357 212657_s_at IL1RN AW083357 210101_x_at SH3GLB1 AF257318.1 209091_s_at SH3GLB1 AF263293.1 205896_at SLC22A4 NM_003059 223145_s_at FLJ10342 BC000764.1 229521_at FLJ36031 BE466274 203041_s_at LAMP2 J04183.1 235054_at FLJ31265 BF941983 229584_at DKFZp434H2111 AK026776.1 219806_s_at FN5 NM_020179 217118_s_at KIAA0930 AK025608.1 212830_at EGFL5 BF110421 227624_at KIAA1546 AB046766.1 226169_at LOC283105 AW276572 210773_s_at FPRL1 U81501.1 210772_at FPRL1 M88107.1 215706_x_at ZYX BC002323.1 200808_s_at ZYX NM_003461 212090_at VPS28 AL571424 205312_at SPI1 NM_003120 201360_at CST3 NM_000099 202426_s_at RXRA NM_002957.2 208540_x_at S100A11P NM_021039 200660_at S100A11 NM_005620 224856_at FKBP5 AL122066.1 204900_x_at SAP30 NM_003864 204899_s_at SAP30 BF247098 218092_s_at HRB NM_004504 215049_x_at CD163 Z22969.1 203645_s_at CD163 NM_004244 216202_s_at SPTLC2 U15555.1 203127_s_at SPTLC2 BC005123.1 200919_at PHC2 NM_004427 205403_at IL1R2 NM_004633 211676_s_at IFNGR1 AF056979.1 218217_at RISC NM_021626 228754_at KIAA1719 BG150485 223482_at TMPIT AF327923.1 223303_at MGC10966 BC004347.1 200766_at CTSD NM_001909 207168_s_at H2AFY NM_004893 200765_x_at CTNNA1 NM_001903 205786_s_at ITGAM NM_000632 209124_at MYD88 U70451.1 218660_at DYSF NM_003494 224791_at DDEF1 W03103 212606_at ALFY AI806395 238025_at FLJ34389 AA706818 225447_at AA613031 225095_at W81119 224414_s_at CARD6 AF356193.1 201193_at IDH1 NM_005896 201619_at PRDX3 NM_006793 204050_s_at CLTA NM_001833 200960_x_at CLTA NM_007096 222498_at FLJ21939 AI809206 224983_at BF339821 228019_s_at MRPS18C AV758614 227948_at FRABIN AI949549 217853_at TEM6 NM_022748 211961_s_at RAB7 AK000826.1 206934_at SIRPB1 NM_006065 203518_at CHS1 NM_000081 203066_at GALNAC4S-6ST NM_014863 202939_at ZMPSTE24 NM_005857 213708_s_at HUMGT198A N40555 202441_at KEO4 AL568449 211509_s_at RTN4 AB015639.1 226577_at N49844 210275_s_at ZNF216 AF062347.1 226353_at SPPL2A AI674647 221036_s_at PSFL NM_031301 225032_at FAD104 AI141784 203234_at UP NM_003364 239598_s_at FLJ20481 AA789296 201858_s_at PRG1 J03223.1 238513_at BF905445 201020_at YWHAH NM_003405 200999_s_at CKAP4 NM_006825 200998_s_at CKAP4 AW029619 235536_at AI640483 202934_at HK2 AI761561 202671_s_at PDXK NM_003681 213532_at LOC285148 AI797833 212975_at KIAA0870 AB020677.2 202197_at MTMR3 NM_021090 203140_at BCL6 NM_001706 231644_at AW016812 218091_at HRB AI989512 212820_at RC3 AB020663.1 205992_s_at IL15 NM_000585 204249_s_at LMO2 NM_005574 228089_x_at MGC3196 H72927 224981_at LOC124446 AL520900 215399_s_at OS-9 AI683900 226071_at DKFZP434K1772 AF217974.1 219256_s_at FLJ20356 NM_018986 200709_at FKBP1A NM_000801 204043_at TCN2 NM_000355 209234_at KIF1B BF939474 202201_at BLVRB NM_000713 37028_at GADD34 U83981 202014_at PPP1R15A NM_014330 224606_at BG250721 202768_at FOSB NM_006732 201531_at ZFP36 NM_003407 209189_at FOS BC004490.1 202241_at C8FW NM_025195 208961_s_at COPEB AB017493.1 201489_at PPIF BC005020.1 230492_s_at KIAA1434 BE328402 217202_s_at U08626 210190_at STX11 AF071504.1 200798_x_at MCL1 NM_021960 224790_at DDEF1 W03103 211749_s_at VAMP3 BC005941.1 224898_at FLJ21016 AA482548 225468_at FLJ36874 AI761804 223309_x_at IPLA2(GAMMA) BG025248 203471_s_at PLEK NM_002664 208926_at NEU1 U84246.1 228648_at LRG AA622495 206026_s_at TNFAIP6 NM_007115 206025_s_at TNFAIP6 AW188198 202391_at BASP1 NM_006317 204470_at CXCL1 NM_001511 202193_at LIMK2 NM_005569 221345_at GPR43 NM_005306 209864_at FRAT2 AB045118.1 210449_x_at MAPK14 AF100544.1 266_s_at CD24 L33930 216379_x_at CD24 AK000168.1 209771_x_at CD24 AA761181 208651_x_at CD24 M58664.1 208650_s_at CD24 BG327863 231688_at AW337833 207329_at MMP8 NM_002424 211657_at CEACAM6 M18728.1 203757_s_at CEACAM6 BC005008.1 207269_at DEFA4 NM_001925 209369_at ANXA3 M63310.1 212531_at LCN2 NM_005564.1 206676_at CEACAM8 M33326.1 210244_at CAMP U19970.1 202018_s_at LTF NM_002343 205557_at BPI NM_001725 205513_at TCN1 NM_001062 206177_s_at ARG1 NM_000045 203021_at SLPI NM_003064 209498_at CEACAM1 X16354.1 214575_s_at AZU1 NM_001700.1 203949_at MPO NM_000250 205653_at CTSG NM_001911 206851_at RNASE3 NM_002935 209396_s_at CHI3L1 M80927.1 210254_at MS4A3 L35848.1 212768_s_at bA209J19.1 AL390736 224707_at ORF1-FL49 AL522667 221485_at B4GALT5 NM_004776.1 206515_at CYP4F3 NM_000896 203936_s_at MMP9 NM_004994 204351_at S100P NM_005980 211883_x_at CEACAM1 M76742.1 205033_s_at DEFA1 NM_004084 206697_s_at HP NM_005143 202286_s_at M1S1 J04152 235816_s_at Rgr AI867408 227140_at AI343467 235568_at LOC199675 BF433657 206111_at RNASE2 NM_002934 239108_at H16791 220615_s_at FLJ10462 NM_018099 211275_s_at GYG AF087942.1 201554_x_at GYG NM_004130 201061_s_at STOM M81635.1 209772_s_at CD24 X69397.1 204430_s_at SLC2A5 NM_003039 201060_x_at STOM AI537887 220570_at RETN NM_020415 224967_at UGCG W72338 227236_at TSPAN-2 AK022144.1 206157_at PTX3 NM_002852 204174_at ALOX5AP NM_001629 219669_at PRV1 NM_020406 226789_at ARIH2 W84421 202119_s_at CPNE3 NM_003909 225129_at CPNE2 AW170571 221523_s_at RAGD AL138717 217995_at SQRDL NM_021199 201470_at GSTTLp28 NM_004832 207157_s_at GNG5 NM_005274 200886_s_at PGAM1 NM_002629 200650_s_at LDHA NM_005566 210386_s_at MTX1 BC001906.1 219890_at CLECSF5 NM_013252 211889_x_at CEACAM1 D12502.1 242013_at BF445012 224009_x_at RDHL AF240697.1 223952_x_at RDHL AF240698.1 223423_at GPCR1 BC000181.2 209892_at FUT4 AF305083.1 228253_at PRSS25 AI917716 226968_at KIF1B AK023184.1 203725_at GADD45A NM_001924 221484_at B4GALT5 NM_004776.1 224973_at C6orf37; AL078599 FLJ20037 219938_s_at PSTPIP2 NM_024430 219259_at FLJ12287 NM_022367 213453_x_at GAPD BF689355 203535_at S100A9 NM_002965 201426_s_at RPLP2 AI922599 210142_x_at FLOT1 AF117234.1 208749_x_at FLOT1 AF085357.1 238439_at MGC22805 AI925518 201850_at CAPG NM_001747 203044_at CHSY1 NM_014918 203042_at LAMP2 NM_002294 208886_at H1F0 BC000145.1 224130_s_at SRA1 AF293026.1 217728_at S100A6 NM_014624 201105_at LGALS1 NM_002305 230322_at NFAM1 AI492017 210146_x_at LILRB2 AF004231.1 219079_at b5 + b5R NM_016230 200782_at ANXA5 NM_001154 216903_s_at CBARA1 AK022697.1 214151_s_at PIGB AU144243 226885_at AI743880 227769_at GPR27 AI703476 225941_at MGC39820 BE465037 225940_at MGC39820 BE465037 201576_s_at GLB1 NM_000404 200950_at ARPC1A NM_006409 228412_at BAZ2B AI991451 201200_at CREG NM_003851 242943_at AA352113 222981_s_at RAB10 BC000896.1 225039_at RPE AV699857 209970_x_at CASP1 M87507.1 205842_s_at JAK2 AF001362.1 208966_x_at IFI16 AF208043.1 202688_at TNFSF10 NM_003810 202687_s_at TNFSF10 U57059.1 205098_at CCR1 AI421071 201298_s_at C2orf6 BC003398.1 221786_at XAP135 AF055030.1 226464_at MGC33365 BE348597 211075_s_at CD47 Z25521.1 208899_x_at ATP6V1D AF100741.1 221449_s_at CDA08 NM_030790 222466_s_at MRPL42 AL136659.1 222793_at RIG-I AK023661.1 219283_at C1GALT2 NM_014158 235385_at AI935334 241752_at SLC8A1 AA094434 225847_at KIAA1363 AB037784.1 223392_s_at KIAA1474 BF510588 210176_at TLR1 AL050262.1 222833_at AU154202 218280_x_at HIST2H2AA NM_003516 214290_s_at HIST2H2AA AA451996 223375_at FLJ20337 BC002720.1 210638_s_at FBXO9 AF176704.1 201350_at FLOT2 NM_004475 225782_at LOC253827 BG171064 225320_at LOC90550 AA579630 224596_at CDW92 NM_022109.1 213836_s_at KIAA1001 AW052084 228585_at AI301948 218482_at DC6 NM_020189 235427_at AA418074 227129_x_at AW006934 225899_x_at AL040396 212457_at TFE3 AL161985.1 220066_at CARD15 NM_022162 214084_x_at NCF1 AW072388 204961_s_at NCF1 NM_000265 201594_s_at PPP4R1 NM_005134 227833_s_at MBD6 AW207668 227150_at KIAA1337 N46867 225056_at AB037810.1 229460_at CED-6 AI927605 203397_s_at GALNT3 BF063271 227438_at LAK AI760166 202530_at MAPK14 NM_001315 208872_s_at DP1 AA814140 208819_at MEL BC002977.1 229373_at AW139719 227379_at MGC44669 AI734993 219607_s_at MS4A4A NM_024021 209684_at RIN2 AL136924.1 201926_s_at DAF BC001288.1 213607_x_at FLJ13052 BE551347 230748_at AI873273 212506_at PICALM AL135735 205173_x_at CD58 NM_001779 222235_s_at dJ19N1.1 AL139812 220330_s_at SAMSN1 NM_022136 218871_x_at GALNACT-2 NM_018590 219157_at KLHL2 NM_007246 36564_at FLJ90005 W27419 203370_s_at ENIGMA NM_005451 215498_s_at MAP2K3 AA780381 220947_s_at DKFZP434P1750 NM_015527 204923_at CXorf9 AL023653 201155_s_at MFN2 NM_014874 211433_x_at FLJ11560 AL583909.1 202084_s_at SEC14L1 NM_003003 204336_s_at RGS19 NM_005873 208992_s_at STAT3 BC000627.1 203184_at FBN2 NM_001999 233924_s_at SEC15L AK002113.1 207691_x_at ENTPD1 NM_001776 201583_s_at SEC23B NM_006363 202348_s_at DYT1 BC000674.1 231513_at KCNJ2 BF111326 225492_at BG500396 223767_at GPR84 AF237762.1 212658_at LHFPL2 N66633 204393_s_at ACPP NM_001099 231029_at AK2 AI740541 204714_s_at F5 NM_000130 227184_at BF508702 217897_at FXYD6 NM_022003 201078_at TM9SF2 NM_004800 213503_x_at ANXA2 BE908217 201590_x_at ANXA2 NM_004039 210427_x_at ANXA2 BC001388.1 208683_at CAPN2 M23254.1 211729_x_at BLVRA BC005902.1 203773_x_at BLVRA NM_000712 225633_at LOC147991 BF057717 218423_x_at HCC8 NM_016516 212467_at KIAA0678 AB014578.1 204798_at MYB NM_005375 202794_at INPP1 NM_002194 226939_at AI202327 243931_at CD58 R64696 230052_s_at TA-NFKBH AA004799 220712_at NM_024984 206472_s_at TLE3 NM_005078 222088_s_at SLC2A14 AA778684 202499_s_at SLC2A3 NM_006931 208724_s_at RAB1A BC000905.1 203097_s_at PDZ-GEF1 NM_014247 203420_at FAM8A1 NM_016255 204780_s_at TNFRSF6 AA164751 203885_at RAB21 NM_014999 202906_s_at NBS1 AI796269 203505_at ABCA1 AF285167.1 203504_s_at ABCA1 NM_005502 218924_s_at CTBS NM_004388 218520_at TBK1 NM_013254 201898_s_at UBE2A AI126625 225466_at FLJ36874 AI761804 221490_at UBAP1 AL136733.1 229305_at AA460299 208864_s_at TXN AF313911.1 200985_s_at CD59 NM_000611 208881_x_at IDI1 BC005247.1 204615_x_at IDI1 NM_004508 208691_at TFRC BC001188.1 207332_s_at TFRC NM_003234 226758_at CGI-59 AA043552 227991_x_at BF516567 207196_s_at TNIP1 NM_006058 224829_at KIAA1673 AA772278 208901_s_at TOP1 J03250.1 222303_at AV700891 224578_at DKFZp762N0610 AB040903.1 213119_at LOC91974 AW058600 204613_at PLCG2 NM_002661 212795_at KIAA1033 AL137753.1 212408_at LAP1B AK023204.1 212397_at RDX AL137751.1 210044_s_at LYL1 BC002796.1 208898_at ATP6V1D AF077614.1 202228_s_at SDFR1 NM_017455 205844_at VNN1 NM_004666 232520_s_at AK023585.1 225750_at BE966748 225440_at AGPAT3 BE737251 219505_at CECR1 NM_017424 225661_at LOC284829 BF794958 222774_s_at NETO2 AI335263 201302_at ANXA4 NM_001153 201301_s_at ANXA4 BC000182.1 218117_at RBX1 NM_014248 208680_at PRDX1 L19184.1 213329_at FNBP2 AA742261 202296_s_at RER1 NM_007033 208270_s_at RNPEP NM_020216 213113_s_at EEG1 AI630178 201894_s_at DCN NM_001920 203761_at SLA NM_006748 209409_at GRB10 D86962.1 208709_s_at NRD1 U64898.1 203371_s_at NDUFB3 NM_002491 201186_at LRPAP1 NM_002337 218728_s_at HSPC163 NM_014184 244313_at AI052659 236155_at AW974609 227645_at P101-PI3K BF892532 224909_s_at PRex1 BF308645 227638_at KIAA1632 AI393091 225897_at AI709406 201669_s_at MARCKS NM_002356 204436_at PP1628 NM_025201 210754_s_at LYN M79321.1 202626_s_at LYN NM_002350 232349_x_at PC326 BF671187 213726_x_at TUBB2 AA515698 208977_x_at TUBB2 BC004188.1 213476_x_at TUBB4 AL565749 212639_x_at K-ALPHA-1 AL581768 209251_x_at TUBA6 BC004949.1 201666_at TIMP1 NM_003254 203814_s_at NQO2 NM_000904 201012_at ANXA1 NM_000700 217794_at DKFZP564J157 NM_018457 222143_s_at FLJ22405 AY007098.1 217930_s_at TOLLIP NM_019009 209467_s_at MKNK1 BC002755.1 200714_x_at OS-9 NM_006812 205020_s_at ARL4 NM_005738 34689_at drn3 AJ243797 201453_x_at RHEB2 NM_005614 32836_at AGPAT1 U56417 209117_at WBP2 U79458.1 235885_at AA810452 226188_at HSPC159 AK025603.1 223717_s_at ACRBP AB051833.1 204081_at NRGN NM_006176 202708_s_at HIST2H2BE NM_003528 235456_at AI810266 209911_x_at H2BFB BC002842.1 218999_at FLJ11000 NM_018295 200863_s_at RAB11A AI215102 206254_at EGF NM_001963 206049_at SELP NM_003005 229893_at BF589413 225672_at GOLGA2 AL514295 201758_at TSG101 NM_006292 236243_at AW070776 211628_x_at J04755.1 203455_s_at SAT NM_002970 223218_s_at MAIL AB037925.1 200797_s_at MCL1 NM_021960.1 221766_s_at C6orf37; AL078599 FLJ20037 202194_at CGI-100 AL117354 201097_s_at ARF4 NM_001660 242760_x_at AA808203 217909_s_at TCFL4 BF056105 203142_s_at AP3B1 NM_003664 209853_s_at PSME3 BC002684.1 200987_x_at PSME3 AA758755 202069_s_at IDH3A AI826060 208654_s_at CD164 AF299343.1 210317_s_at YWHAE U28936.1 201805_at PRKAG1 NM_002733 224716_at NFKBIE BG163267 221693_s_at MRPS18A AB049952.1 200757_s_at CALU NM_001219 233072_at KIAA1857 AI348745 AFFX- GAPD M33197 HUMGAPDH/M33197_M_at 200039_s_at PSMB2 NM_002794 200001_at CAPNS1 NM_001749 201119_s_at COX8 NM_004074 200654_at P4HB J02783.1 227649_s_at AU144000 203342_at TIMM17B NM_005834 64899_at FLJ13055 AA209463 212443_at KIAA0540 AB011112.2 201050_at PLD3 NM_012268 203254_s_at TLN1 NM_006289 225294_s_at MUM2 BG340967 201251_at PKM2 NM_002654 212705_x_at TTS-2.2 BF570210 211716_x_at ARHGDIA BC005851.1 201168_x_at ARHGDIA NM_004309 209367_at STXBP2 AB002559.1 203085_s_at TGFB1 BC000125.1 200649_at NUCB1 BC002356.1 203718_at NTE NM_006702 207722_s_at BTBD2 NM_017797 201082_s_at DCTN1 NM_004082 200964_at UBE1 NM_003334 200041_s_at BAT1 NM_004640 202111_at SLC4A2 NM_003040 204789_at FMNL NM_005892 201903_at UQCRC1 NM_003365 224916_at BG286973 220320_at FLJ22570 NM_024872 224186_s_at FLJ12565 AL136729.1 204805_s_at H1FX NM_006026 203839_s_at ACK1 NM_005781 36994_at ATPL M62762 203175_at ARHG NM_001665 226111_s_at ZFP385 BF525395 217903_at STRN4 NM_013403 201234_at ILK NM_004517 231974_at MLL2 AI742164 203523_at LSP1 NM_002339 234068_s_at AP2A1 AC006942 208625_s_at EIF4G1 AF104913.1 40850_at FKBP38 L37033 208677_s_at BSG AL550657 202041_s_at FIBP NM_004214 202275_at G6PD NM_000402 223050_s_at FBXW5 BC000850.1 210996_s_at YWHAE U43430.1 221050_s_at GTPBP2 NM_019096 218522_s_at VCY2IP1 NM_018174 205740_s_at MGC10433 NM_024321 201794_s_at C1orf16 NM_014837 224783_at AI024869 203729_at EMP3 NM_001425 202518_at BCL7B NM_001707 203751_x_at JUND NM_005354.2 212737_at GM2A AL513583 209616_s_at CES1 S73751.1 202592_at GCN5L1 NM_001487 227937_at AA307731 220998_s_at UNC93B1 NM_030930 200922_at KDELR1 NM_006801 226144_at KIAA1138 AB032964.1 225753_at FLJ32203 AW003280 226201_at AI224128 209636_at NFKB2 BC002844.1 202848_s_at GPRK6 BG423052 205142_x_at ABCD1 NM_000033 208829_at TAPBP AF029750.1 205398_s_at MADH3 NM_005902 201412_at LRP10 NM_014045 227511_at ACTR2 BE963280 224951_at LOC91012 BE348305 233571_x_at C20orf149 AL121829 40225_at GAK D88435 202281_at GAK NM_005255 212601_at KIAA0399 AB007859.2 219253_at FAM11B NM_024121 212099_at AI263909 224800_at FENS-1 AK022888.1 50314_i_at C20orf27 AI761506 222779_s_at HSA277841 AA706815 218057_x_at NOC4 NM_006067 222690_s_at FLJ10902 AA194996 223031_s_at DKFZp586I021 AL136921.1 200677_at PTTG1IP NM_004339 222662_at LOC286044 W60806 218472_s_at PELO NM_015946 90265_at CENTA1 AW050627 37965_at PARVB AA181053 212472_at BE965029 211385_x_at SULT1A2 U28169.1 207122_x_at SULT1A2 NM_001054 203615_x_at SULT1A1 NM_001055 210580_x_at SULT1A3 L25275.1 221866_at TFEB AL035588 226760_at LOC203411 BF666325 222654_at FLJ20421 AW295105 224900_at KIAA1255 AK025960.1 223167_s_at USP25 AF170562.1 220146_at TLR7 NM_016562 218909_at RPS6KC1 NM_012424 202447_at DECR1 NM_001359 210705_s_at TRIM5 AF220028.1 206553_at OAS2 NM_002535 209971_x_at HRI AI928526 201172_x_at ATP6V0E NM_003945 212552_at HPCAL1 BE617588 201798_s_at FER1L3 NM_013451 226002_at GAB1 AK022142.1 225890_at C20orf72 AI678096 227854_at FLJ10335 BE620258 226874_at KLHL8 BF591270 221718_s_at AKAP13 M90360.1 239277_at AI559696 242538_at TFDP1 AW007021 206335_at GALNS NM_000512 35254_at fln29 AB007447 212051_at AK026913.1 209056_s_at CDC5L AW268817 202313_at PPP2R2A NM_002717 200881_s_at DNAJA1 NM_001539 232034_at AL117607.1 243196_s_at FLN29 BF223703 226448_at AI130705 225622_at PAG NM_018440.1 209536_s_at MAGED2 AF320070.1 230219_at NUDE1 AI831952 225561_at SELT BF692332 205698_s_at MAP2K6 NM_002758 232233_at CT2; OKB1; AL050350 FLIPT2; dJ261K5.1 223043_at LOC51234 AF151018.1 226646_at KLF2 AI831932 222887_s_at FLJ20507 AA034018 203043_at ALTE NM_004729 201484_at SUPT4H1 NM_003168 235234_at FLJ36874 AA359612 228685_at AI990349 224858_at ZDHHC5 AB051535.1 218018_at C21orf97 NM_021941.1 201136_at PLP2 NM_002668 203437_at C17orf35 NM_003876 222468_at PKD1-like W58365 221434_s_at DC50 NM_031210 203974_at FAM16AX NM_012080 234351_x_at TRPS1 AK000948.1 221492_s_at APG3 AF202092.1 210873_x_at APOBEC3A U03891.2 244811_at AI561173 233011_at AU155094 227404_s_at EGR1 AI459194 201694_s_at EGR1 NM_001964 205249_at EGR2 NM_000399 219492_at CHIC2 NM_012110 215719_x_at TNFRSF6 X83493.1 212577_at KIAA0650 AA868754 210681_s_at USP15 AF153604.1 203094_at CMT2 NM_014628 222881_at HPSE AF155510.1 38710_at FLJ20113 AL096714 240336_at AI242749 224789_at KIAA1892 AL555107 223649_s_at CGI-69 AF317711.1 223266_at ALS2CR2 AB038950.1 221748_s_at AL046979 219672_at ERAF NM_016633 206834_at HBD NM_000519 214433_s_at SELENBP1 NM_003944.1 211546_x_at SNCA L36674.1 207827_x_at SNCA L36675.1 204466_s_at SNCA BG260394 205950_s_at CA1 NM_001738 201178_at FBXO7 NM_012179 213515_x_at HBG2 AI133353 204419_x_at HBG2 NM_000184 204848_x_at HBG1 NM_000559 226179_at N63920 221920_s_at MSCP BE677761 217748_at CGI-45 NM_015999 209845_at MKRN1 AF117233.1 201285_at MKRN1 NM_013446 226811_at FLJ20202 AL046017 215438_x_at GSPT1 BE906054 231078_at MSCP H69701 208632_at RNF10 AL578551 202130_at SUDD AW006290 204187_at GMPR NM_006877 202974_at MPP1 NM_002436 228361_at AL561296 209339_at SIAH2 U76248.1 212540_at CDC34 BG476661 201160_s_at CSDA AL556190 224891_at BE888885 221675_s_at CHPT1 AF195624.1 225074_at RAB2B AA531016 202387_at BAG1 NM_004323 218030_at GIT1 NM_014030 212330_at TFDP1 R60866 224640_at SPPL3 AL514199 227935_s_at MGC16202 AA522681 217882_at LOC55831 NM_018447 200622_x_at CALM3 AV685208 217736_s_at HRI NM_014413 239205_s_at CR1L BE552138 209398_at H1F2 BC002649.1 227219_x_at MAP1LC3A BE857601 226664_at AL121747 222730_s_at ZDHHC2 AI814257 223518_at DFFA AF087573.1 202568_s_at MARK3 AI745639 223252_at MGC2641 BC000755.1 212383_at ATP6V0A1 AL096733.1 203344_s_at RBBP8 NM_002894 243095_at AW451624 244492_at BF357738 229907_at AW058634 212262_at QKI AF142419.1 222608_s_at ANLN AK023208.1 229200_at N40199 204308_s_at KIAA0329 NM_014844 225160_x_at MGC5370 AI952357 223302_s_at VIK BC004288.1 203276_at LMNB1 NM_005573 207467_x_at CAST NM_001750 209193_at PIM1 M24779.1 225206_s_at LOC54516 NM_019041.1 204255_s_at VDR NM_000376.1 223849_s_at MOV10 BC002548.1 223140_s_at DDX36 AF217190.1 218599_at REC8 NM_005132 201015_s_at JUP NM_021991 210859_x_at CLN3 AF077973.1 212285_s_at AGRN AF016903.1 212370_x_at KIAA0592 AL080183.1 211068_x_at FLJ10824 BC006456.1 226077_at FLJ31951 AL553942 244660_at AA746320 244481_at AK2 BF196523 233433_at AU158871 223824_at FLJ11218 BC005364.1 213037_x_at STAU AJ132258.1 207320_x_at STAU NM_004602 222734_at WARS2 BF515963 239342_at DGKZ AI567554 41386_i_at KIAA0346 AB002344 244548_at AI189587 244312_at AW195572 241893_at BE927766 235028_at BG288330 237006_at AA703523 229483_at AA760738 231109_at R44974 239780_at AA468422 242403_at AI459177 235847_at BF111312 232744_x_at BG485129 242471_at AI916641 238534_at AA262583 238883_at AW975051 239264_at MCCC2 AW973078 243819_at AU146329 241837_at AI289774 239331_at AW954199 224984_at NFAT5 W61007 242865_at AI332638 239876_at R37337 244026_at BF063657 233914_s_at KIAA1766 AK022478.1 227528_s_at MLL2 AI394529 227527_at MLL2 AI394529 211950_at RBAF600 AB007931.1 232614_at AU146963 233425_at AU147903 235680_at AI914925 215375_x_at AK023938.1 242558_at AW362945 244358_at AW372457 240038_at AW057518 235592_at AW960145 239379_at AW449624 236742_at AA132172 239555_at W87626 232537_x_at AU159474 225893_at AL589593 233224_at AL137645.1 226115_at ELYS AI138934 235361_at AW842975 238788_at AI475803 218397_at FLJ10335 NM_018062 226155_at KIAA1600 AB046820.1 201377_at NICE-4 NM_014847 218776_s_at FLJ23375 NM_024956 203907_s_at KIAA0763 NM_014869 241692_at AA868729 242390_at AI821925 204435_at NUPL1 NM_014778 243261_at BF530486 234631_at KRTAP4-8 AJ406940.1 233732_at AL137445.1 227197_at DKFZP434D146 AI989530 241027_at BE858373 243158_at AV700081 217839_at TFG NM_006070 237262_at AI912190 207876_s_at FLNC NM_001458 230386_at AI819394 223448_x_at MRPS22 AF063603.1 235479_at AI948598 209774_x_at CXCL2 M57731.1 222729_at FBXW7 BE551877 229097_at AI813331 204141_at TUBB NM_001069 235882_at BF115777 216260_at DICER1 AK001827.1 223797_at AF130079.1 220576_at FLJ12377 NM_024989 203241_at UVRAG NM_003369 239725_at T90703 217047_s_at FAM13A1 AK027138.1 202973_x_at FAM13A1 NM_014883 201999_s_at TCTEL1 NM_006519 235258_at AI873425 227680_at LOC284695 AI057121 229501_s_at USP8 AI393759 214684_at MEF2A X63381.1 209025_s_at NSAP1 AF037448.1 203057_s_at PRDM2 NM_015866.1 241596_at NUDT10 AL045306 235421_at AV713062 223846_at FLJ21939 BC001139.1 235175_at GBP4 BG260886 226269_at AL110252.1 209040_s_at PSMB8 U17496.1 212380_at KIAA0082 D43949.1 202255_s_at KIAA0440 NM_015556 238792_at PCNX BF209668 242035_at AA805681 236077_at CAPN3 AI671238 226274_at AK025562.1 228891_at N93399 200814_at PSME1 NM_006263 243_g_at MAP4 M64571 231241_at MGC13114 AW469714 230110_at MCOLN2 AV713773 224849_at FLJ10890 AK023161.1 218008_at FLJ10099 NM_017994 204279_at PSMB9 NM_002800 200620_at C1orf8 NM_004872 217978_s_at HSA243666 NM_017582 200790_at ODC1 NM_002539 206777_s_at CRYBB2 NM_000496 219953_s_at C11orf17 NM_020642 243601_at AA744124 224076_s_at WHSC1L1 AF255649.1 225205_at KIF3B AI819734 240118_at AI401105 235113_at PPIL5 AA742244 234884_x_at L21961.1 234764_x_at IGL@ U96394.1 217258_x_at AF043583.1 216576_x_at AF103529.1 215176_x_at IGKC AW404894 211645_x_at IGKC M85256.1 217148_x_at IGLJ3 AJ249377.1 216984_x_at IGLJ3 D84143.1 211798_x_at IGLJ3 AB001733.1 211644_x_at IGKC L14458.1 223565_at PACAP AF151024.1 216207_x_at IGKV1D-13 AW408194 221253_s_at MGC3178 NM_030810 215946_x_at LOC91316 AL022324 217227_x_at IGL@ X93006.1 224342_x_at IGL@ L14452.1 217179_x_at IGL@ X79782.1 215379_x_at IGLJ3 AV698647 215121_x_at IGLJ3 AA680302 214677_x_at IGLJ3 X57812.1 209138_x_at IGLJ3 M87790.1 214777_at IGKC BG482805 216853_x_at IGLJ3 AF234255.1 211881_x_at IGLJ3 AB014341.1 214768_x_at IGKC BG540628 234366_x_at IGL@ AF103591.1 217480_x_at IGKV1OR15-118; M20812 IGKVP2; IGKV1OR118; IGKV1/OR-118; IGKV1/OR15-118 216401_x_at IGKV AJ408433 216491_x_at V4-4 U80139 211637_x_at IGHM L23516.1 224795_x_at IGKC AW575927 211430_s_at IGHG3 M87789.1 217235_x_at IGLJ3 D84140.1 211634_x_at IGHM M24669.1 211633_x_at ICAP-1A M24668.1 211908_x_at IGHM M87268.1 205692_s_at CD38 NM_001775 201923_at PRDX4 NM_006406 211639_x_at IGHM L23518.1 216517_at IGKV1D-8; L24; Z00008 L24a; IGKV1D8 228323_at AF15Q14 BF248364 218883_s_at FLJ23468 NM_024629 218039_at ANKT NM_016359 209773_s_at RRM2 BC001886.1 202589_at TYMS NM_001071 202503_s_at KIAA0101 NM_014736 201890_at RRM2 NM_001034.1 201292_at TOP2A NM_001067.1 209714_s_at CDKN3 AF213033.1 203554_x_at PTTG1 NM_004219 204026_s_at ZWINT NM_007057 202107_s_at MCM2 NM_004526 222680_s_at RAMP AK001261.1 226099_at ELL2 AI924426 204170_s_at CKS2 NM_001827 222036_s_at AI859865 203213_at CDC2 AL524035 203755_at BUB1B NM_001211 200983_x_at CD59 NM_000611.1 209610_s_at SLC1A4 BF340083 201897_s_at CKS1B NM_001826 218350_s_at GMNN NM_015895 209408_at KNSL6 U63743.1 226936_at BG492359 208103_s_at ANP32E NM_030920 225834_at AL135396 201096_s_at ARF4 AL537042 203432_at TMPO AW272611 202433_at SLC35B1 NM_005827 204825_at MELK NM_014791 223054_at DNAJB11 BC001144.1 216640_s_at AK026926.1 208639_x_at P5 BC001312.1 207668_x_at P5 NM_005742 222411_s_at SSR3 AW087870 203594_at RTCD1 NM_003729 201532_at PSMA3 NM_002788 203857_s_at PDIR NM_006810 202345_s_at FABP5 NM_001444 229865_at AW058617 222435_s_at UBE2J1 AF161502.1 217825_s_at UBE2J1 AF151039.1 217826_s_at UBE2J1 NM_016021 201543_s_at SARA1 NM_020150 222231_s_at PRO1855 AK025328.1 217823_s_at UBE2J1 NM_016021.1 223325_at LOC51061 AF131780.1 209186_at ATP2A2 M23114.1 201281_at ADRM1 NM_007002 217824_at UBE2J1 NM_016021.1 214512_s_at PC4 NM_006713.1 226773_at AW290940 221867_at FLJ31821 BF436315 218927_s_at C4S-2 NM_018641 201714_at TUBG1 NM_001070 201516_at SRM NM_003132 218130_at MGC4368 NM_024510 203148_s_at TRIM14 NM_014788 203800_s_at MRPS14 NM_022100.1 201175_at CGI-31 NM_015959 203155_at SETDB1 NM_012432 201037_at PFKP NM_002627 204116_at IL2RG NM_000206 212733_at KIAA0226 AI798908 203281_s_at UBE1L NM_003335 202245_at LSS AW084510 218632_at FLJ21156 NM_024602 208676_s_at U87954.1 218059_at LOC51123 NM_016096 224333_s_at MRPS5 AB049940.1 222748_s_at FLJ20511 AW194729 207375_s_at IL15RA NM_002189 206576_s_at CEACAM1 NM_001712 208805_at PSMA6 BC002979.1 222631_at PI4K2B AI862887 200700_s_at KDELR2 NM_006854 222250_s_at DKFZP434B168 AK001363.1 208640_at RAC1 BG292367 208598_s_at UREB1 NM_005703 202474_s_at HCFC1 NM_005334 202854_at HPRT1 NM_000194 203573_s_at RABGGTA NM_004581 223163_s_at HSPC216 BC000190.1 202883_s_at PPP2R1B T79584 201068_s_at PSMC2 NM_002803 211762_s_at KPNA2 BC005978.1 223354_x_at GL004 BC003191.1 212250_at AI972475 202635_s_at POLR2K NM_005034 202511_s_at APG5L AK001899.1 214315_x_at CALR AI348935 212953_x_at CALR BE251303 213061_s_at LOC123803 AA643304 222805_at FLJ12838 AI587307 218048_at BUP NM_012071 209765_at ADAM19 Y13786.2 208815_x_at HSPA4 AB023420.1 223128_at H17 AL136923.1 221853_s_at LOC283820 N39536 227350_at AI807356 208808_s_at HMGB2 BC000903.1 201088_at KPNA2 NM_002266 204127_at RFC3 BC000149.2 224428_s_at CDCA7 AY029179.1 212020_s_at MKI67 BF001806 228069_at AL138828 213851_at BG031677 218447_at DC13 NM_020188 210927_x_at JTB BC004239.1 223991_s_at GALNT2 AF130059.1 230165_at TRIPIN N31731 228401_at PRO2000 AI656807 212053_at KIAA0251 AK025504.1 203033_x_at FH NM_000143 224745_x_at DKFZp761A052 AK026260.1 224405_at IRTA2 AF343663.1 206632_s_at APOBEC3B NM_004900 206486_at LAG3 NM_002286 226217_at AU152456 226025_at KIAA0379 AV740426 204563_at SELL NM_000655 201951_at ALCAM NM_001627.1 213116_at NEK3 AI191920 208979_at NCOA6 AF128458.1 201201_at CSTB NM_000100 210966_x_at LARP BC001460.1 202579_x_at HMGN4 NM_006353 209858_x_at MPPE1 BC002877.1 203688_at PKD2 NM_000297 208875_s_at AF092132.1 207167_at IGSF2 NM_004258 200988_s_at PSME3 NM_005789 209191_at TUBB-5 BC002654.1 235812_at FLJ38101 AI935115 212171_x_at VEGF H95344 204458_at LYPLA3 AL110209.1 212901_s_at CSTF2T BF732638 55692_at ELMO2 W22924 214414_x_at HBA1 T50399 227388_at AA479016 239582_at AW514654 209221_s_at OSBPL2 AI753638 206881_s_at LILRA3 NM_006865 244389_at AU145538 226759_at ZNFN1A4 BE793250 202359_s_at SNX19 NM_014758

Under- or over-expression of 371 (p<0.001) [or 844 (p<0.01)] (Table 2C) of the genes listed in Tables 2A and 2B are correlated with the severity of disease measured by SLEDAI.

TABLE 2C Table 2C Affy ID Common GenBank p-value 202446_s_at PLSCR1 AI825926 P < 0.0001 223767_at GPR84 AF237762.1 P < 0.0001 221485_at B4GALT5 NM_004776.1 P < 0.0001 221050_s_at GTPBP2 NM_019096 P < 0.0001 213361_at PCTAIRE2BP AW129593 P < 0.0001 222154_s_at DNAPTP6 AK002064.1 P < 0.0001 202145_at LY6E NM_002346 P < 0.0001 221589_s_at ALDH6A1 AF130089.1 P < 0.0001 202869_at OAS1 NM_016816 P < 0.0001 225447_at AA613031 P < 0.0001 205552_s_at OAS1 NM_002534 P < 0.0001 209864_at FRAT2 AB045118.1 P < 0.0001 227609_at EPSTI1 AA633203 P < 0.0001 225672_at GOLGA2 AL514295 P < 0.0001 200815_s_at PAFAH1B1 L13386.1 P < 0.0001 208901_s_at TOP1 J03250.1 P < 0.0001 228230_at PRIC285 AL121829 P < 0.0001 226968_at KIF1B AK023184.1 P < 0.0001 209930_s_at NFE2 L13974.1 P < 0.0001 204994_at MX2 NM_002463 P < 0.0001 223220_s_at BAL AF307338.1 P < 0.0001 206111_at RNASE2 NM_002934 P < 0.0001 226702_at LOC129607 AI742057 P < 0.0001 224009_x_at RDHL AF240697.1 P < 0.0001 206157_at PTX3 NM_002852 P < 0.0001 214453_s_at IFI44 NM_006417.1 P < 0.0001 223952_x_at RDHL AF240698.1 0.0001 213607_x_at FLJ13052 BE551347 0.0001 222793_at RIG-I AK023661.1 0.0001 218883_s_at FLJ23468 NM_024629 0.0001 221484_at B4GALT5 NM_004776.1 0.0001 211883_x_at CEACAM1 M76742.1 0.0001 200999_s_at CKAP4 NM_006825 0.0001 201020_at YWHAH NM_003405 0.0001 210773_s_at FPRL1 U81501.1 0.0001 224707_at ORF1-FL49 AL522667 0.0001 208751_at NAPA BC001165.1 0.0002 214438_at HLX1 M60721.1 0.0002 204972_at OAS2 NM_016817 0.0002 202430_s_at PLSCR1 NM_021105 0.0002 202086_at MX1 NM_002462 0.0002 208918_s_at FLJ13052 BC001709.1 0.0002 207320_x_at STAU NM_004602 0.0002 204351_at S100P NM_005980 0.0002 207674_at FCAR NM_002000 0.0002 225834_at AL135396 0.0002 212020_s_at MKI67 BF001806 0.0002 203755_at BUB1B NM_001211 0.0002 230036_at FLJ39885 BE669858 0.0002 205698_s_at MAP2K6 NM_002758 0.0002 201926_s_at DAF BC001288.1 0.0002 209398_at H1F2 BC002649.1 0.0002 202068_s_at LDLR NM_000527 0.0002 206491_s_at NAPA NM_003827 0.0002 209498_at CEACAM1 X16354.1 0.0003 239988_at AA708470 0.0003 201193_at IDH1 NM_005896 0.0003 218660_at DYSF NM_003494 0.0003 218352_at RCBTB1 NM_018191 0.0003 208436_s_at IRF7 NM_004030 0.0003 233924_s_at SEC15L AK002113.1 0.0003 212602_at ALFY AI806395 0.0003 211456_x_at AF333388.1 0.0003 210772_at FPRL1 M88107.1 0.0003 204336_s_at RGS19 NM_005873 0.0003 219211_at USP18 NM_017414 0.0003 205863_at S100A12 NM_005621 0.0004 201315_x_at IFITM2 NM_006435 0.0004 44673_at SN N53555 0.0004 203761_at SLA NM_006748 0.0004 200998_s_at CKAP4 AW029619 0.0004 209616_s_at CES1 S73751.1 0.0004 211012_s_at PML BC000080.1 0.0004 214059_at IFI44 BE049439 0.0004 231688_at AW337833 0.0005 209417_s_at IFI35 BC001356.1 0.0005 236285_at AI631846 0.0005 207677_s_at NCF4 NM_013416 0.0006 206026_s_at TNFAIP6 NM_007115 0.0005 219356_s_at HSPC177 NM_016410 0.0005 202391_at BASP1 NM_006317 0.0005 216202_s_at SPTLC2 U15555.1 0.0005 241916_at AI984040 0.0005 222680_s_at RAMP AK001261.1 0.0005 203936_s_at MMP9 NM_004994 0.0005 210797_s_at OASL AF063612.1 0.0006 202530_at MAPK14 NM_001315 0.0006 222036_s_at AI859865 0.0006 210101_x_at SH3GLB1 AF257318.1 0.0006 235568_at LOC199675 BF433657 0.0006 226603_at FLJ39885 BE966604 0.0006 211889_x_at CEACAM1 D12502.1 0.0006 228323_at AF15Q14 BF248364 0.0006 201118_at PGD NM_002631 0.0006 233072_at KIAA1857 AI348745 0.0006 204211_x_at PRKR NM_002759 0.0006 209091_s_at SH3GLB1 AF263293.1 0.0006 224701_at KIAA1268 AA056548 0.0007 204439_at C1orf29 NM_006820 0.0007 208864_s_at TXN AF313911.1 0.0007 218728_s_at HSPC163 NM_014184 0.0007 218403_at HSPC132 NM_016399 0.0007 202348_s_at DYT1 BC000674.1 0.0007 242760_x_at AA808203 0.0007 217995_at SQRDL NM_021199 0.0007 202794_at INPP1 NM_002194 0.0008 202411_at IFI27 NM_005532 0.0008 204714_s_at F5 NM_000130 0.0008 233587_s_at AK022852.1 0.0009 219283_at C1GALT2 NM_014158 0.0009 217977_at SEPX1 NM_016332 0.0009 226789_at ARIH2 W84421 0.0009 222662_at LOC286044 W60806 0.0009 222010_at TCP1 BF224073 0.0009 212531_at LCN2 NM_005564.1 0.001 203765_at GCA NM_012198 0.001 206515_at CYP4F3 NM_000896 0.001 201554_x_at GYG NM_004130 0.001 214290_s_at HIST2H2AA AA451996 0.001 200923_at LGALS3BP NM_005567 0.001 235816_s_at Rgr AI867408 0.001 212185_x_at MT2A NM_005953.1 0.0011 224414_s_at CARD6 AF356193.1 0.0011 228648_at LRG AA622495 0.0011 208886_at H1F0 BC000145.1 0.0011 205483_s_at G1P2 NM_005101 0.0012 203153_at IFIT1 NM_001548 0.0012 229770_at FLJ31978 AI041543 0.0013 212203_x_at IFITM3 BF338947 0.0013 201060_x_at STOM AI537887 0.0013 231455_at AA768888 0.0013 213532_at LOC285148 AI797833 0.0013 219863_at CEB1 NM_016323 0.0014 209593_s_at TOR1B AF317129.1 0.0014 213294_at AV755522 0.0014 205627_at CDA NM_001785 0.0014 200766_at CTSD NM_001909 0.0015 222986_s_at SCOTIN BC001463.1 0.0015 206177_s_at ARG1 NM_000045 0.0015 225468_at FLJ36874 AI761804 0.0016 206676_at CEACAM8 M33326.1 0.0016 227438_at LAK AI760166 0.0016 204174_at ALOX5AP NM_001629 0.0016 226448_at AI130705 0.0016 220947_s_at DKFZP434P1750 NM_015527 0.0016 201298_s_at C2orf6 BC003398.1 0.0017 225076_s_at KIAA1404 AA150460 0.0017 225032_at FAD104 AI141784 0.0017 226275_at AI188653 0.0018 210386_s_at MTX1 BC001906.1 0.0018 204923_at CXorf9 AL023653 0.0019 206025_s_at TNFAIP6 AW188198 0.0019 223375_at FLJ20337 BC002720.1 0.0019 201619_at PRDX3 NM_006793 0.0019 226077_at FLJ31951 AL553942 0.0019 228361_at AL561296 0.002 202441_at KEO4 AL568449 0.002 227833_s_at MBD6 AW207668 0.0021 212268_at SERPINB1 NM_030666.1 0.0021 219157_at KLHL2 NM_007246 0.0022 203397_s_at GALNT3 BF063271 0.0022 216041_x_at GRN AK023348.1 0.0023 205147_x_at NCF4 NM_000631 0.0023 200660_at S100A11 NM_005620 0.0023 201963_at FACL2 NM_021122 0.0023 229460_at CED-6 AI927605 0.0024 229450_at AI075407 0.0024 201061_s_at STOM M81635.1 0.0024 209369_at ANXA3 M63310.1 0.0025 231644_at AW016812 0.0025 200678_x_at GRN NM_002087 0.0025 220615_s_at FLJ10462 NM_018099 0.0025 211075_s_at CD47 Z25521.1 0.0025 207691_x_at ENTPD1 NM_001776 0.0028 238025_at FLJ34389 AA706818 0.0026 232517_s_at PRIC285 AL121829 0.0026 210449_x_at MAPK14 AF100544.1 0.0026 204043_at TCN2 NM_000355 0.0026 209408_at KNSL6 U63743.1 0.0027 213836_s_at KIAA1001 AW052084 0.0027 209396_s_at CHI3L1 M80927.1 0.0027 203725_at GADD45A NM_001924 0.0027 227807_at AI738416 0.0028 204026_s_at ZWINT NM_007057 0.0028 210176_at TLR1 AL050262.1 0.0028 201096_s_at ARF4 AL537042 0.0028 221036_s_at PSFL NM_031301 0.0029 229865_at AW058617 0.003 216565_x_at AL121994 0.003 206697_s_at HP NM_005143 0.0031 242625_at cig5 AW189843 0.0031 206682_at HML2 NM_006344 0.0031 226939_at AI202327 0.0032 205660_at OASL NM_003733 0.0032 200798_x_at MCL1 NM_021960 0.0032 228531_at FLJ20073 AA741307 0.0032 205513_at TCN1 NM_001062 0.0032 225056_at AB037810.1 0.0032 221345_at GPR43 NM_005306 0.0033 224790_at DDEF1 W03103 0.0033 219607_s_at MS4A4A NM_024021 0.0033 213476_x_at TUBB4 AL565749 0.0033 242020_s_at AI925506 0.0033 211284_s_at GRN BC000324.1 0.0034 224967_at UGCG W72338 0.0034 202934_at HK2 AI761561 0.0034 201951_at ALCAM NM_001627.1 0.0034 203140_at BCL6 NM_001706 0.0034 219492_at CHIC2 NM_012110 0.0034 227140_at AI343467 0.0035 220330_s_at SAMSN1 NM_022136 0.0035 228617_at AA142842 0.0035 208926_at NEU1 U84246.1 0.0035 205098_at CCR1 AI421071 0.0035 202708_s_at HIST2H2BE NM_003528 0.0036 203276_at LMNB1 NM_005573 0.0036 218472_s_at PELO NM_015946 0.0036 218059_at LOC51123 NM_016096 0.0036 225622_at PAG NM_018440.1 0.0037 202018_s_at LTF NM_002343 0.0038 218454_at FLJ22662 NM_024829 0.0038 218057_x_at NOC4 NM_006067 0.0038 230748_at AI873273 0.0038 204825_at MELK NM_014791 0.0039 201890_at RRM2 NM_001034.1 0.004 208881_x_at IDI1 BC005247.1 0.004 203371_s_at NDUFB3 NM_002491 0.0041 208919_s_at FLJ13052 BC001709.1 0.0041 202589_at TYMS NM_001071 0.0042 201292_at TOP2A NM_001067.1 0.0043 201015_s_at JUP NM_021991 0.0043 231769_at FBXO6 AF129536.1 0.0045 212606_at ALFY AI806395 0.0045 218599_at REC8 NM_005132 0.0046 218268_at FLJ12085 NM_022771 0.0046 242234_at HSXIAPAF1 AI859280 0.0047 211275_s_at GYG AF087942.1 0.0047 204308_s_at KIAA0329 NM_014844 0.0047 208749_x_at FLOT1 AF085357.1 0.0047 204747_at IFIT4 NM_001549 0.0049 241812_at AV648669 0.0049 203127_s_at SPTLC2 BC005123.1 0.005 236172_at AW206817 0.0051 227236_at TSPAN-2 AK022144.1 0.0052 212051_at AK026913.1 0.0052 202197_at MTMR3 NM_021090 0.0052 200983_x_at CD59 NM_000611.1 0.0053 204615_x_at IDI1 NM_004508 0.0055 203021_at SLPI NM_003064 0.0055 202863_at SP100 NM_003113 0.0055 219259_at FLJ12287 NM_022367 0.0056 222981_s_at RAB10 BC000896.1 0.0056 204170_s_at CKS2 NM_001827 0.0057 239108_at H16791 0.0058 225095_at W81119 0.0058 201583_s_at SEC23B NM_006363 0.0059 203236_s_at LGALS9 NM_009587 0.006 223145_s_at FLJ10342 BC000764.1 0.0061 208805_at PSMA6 BC002979.1 0.0062 208977_x_at TUBB2 BC004188.1 0.0063 225160_x_at MGC5370 AI952357 0.0064 212639_x_at K-ALPHA-1 AL581768 0.0065 203432_at TMPO AW272611 0.0066 210244_at CAMP U19970.1 0.0067 220001_at PADI4 NM_012387 0.0067 221874_at KIAA1324 AB037745.1 0.0069 202084_s_at SEC14L1 NM_003003 0.0071 227219_x_at MAP1LC3A BE857601 0.0072 211404_s_at APLP2 BC004371.1 0.0072 227649_s_at AU144000 0.0073 238327_at ECGF1 AI962367 0.0073 200663_at CD63 NM_001780 0.0074 223423_at GPCR1 BC000181.2 0.0075 200039_s_at PSMB2 NM_002794 0.0075 204798_at MYB NM_005375 0.0077 203213_at CDC2 AL524035 0.0076 224829_at KIAA1673 AA772278 0.0077 208992_s_at STAT3 BC000627.1 0.0078 205099_s_at CCR1 NM_001295 0.0078 229305_at AA460299 0.008 203342_at TIMM17B NM_005834 0.008 201897_s_at CKS1B NM_001826 0.008 207375_s_at IL15RA NM_002189 0.0081 203094_at CMT2 NM_014628 0.0081 217794_at DKFZP564J157 NM_018457 0.0083 209221_s_at OSBPL2 AI753638 0.0083 202241_at C8FW NM_025195 0.0084 222498_at FLJ21939 AI809206 0.0084 208654_s_at CD164 AF299343.1 0.0085 211749_s_at VAMP3 BC005941.1 0.0085 232787_at AK023724.1 0.0086 204713_s_at F5 AA910306 0.0086 201601_x_at IFITM1 NM_003641 0.0087 219691_at FLJ20073 NM_017654 0.0088 242013_at BF445012 0.0089 228412_at BAZ2B AI991451 0.0089 228069_at AL138828 0.0089 219890_at CLECSF5 NM_013252 0.0091 201642_at IFNGR2 NM_005534 0.0091 235456_at AI810266 0.0092 208702_x_at APLP2 BC000373.1 0.0092 201453_x_at RHEB2 NM_005614 0.0092 201786_s_at ADAR NM_001111 0.0094 229521_at FLJ36031 BE466274 0.0094 203814_s_at NQO2 NM_000904 0.0096 209773_s_at RRM2 BC001886.1 0.0096 217835_x_at C20orf24 NM_018840 0.0097 204858_s_at ECGF1 NM_001953 0.0097 218559_s_at MAFB NM_005461 0.0098 218188_s_at TIMM13 NM_012458 0.0098 209911_x_at H2BFB BC002842.1 0.01 226883_at T89044 0.0099 241299_at AI651969 0.0099 212873_at HA-1 BE349017 0.0099 218496_at RNASEH1 BG534527 0.0098 218100_s_at ESRRBL1 NM_018010 0.0098 217256_x_at dJ507I15.1 Z98950 0.0098 243363_at LEF1 AA992805 0.0098 229874_x_at BE865517 0.0097 40255_at DDX28 AC004531 0.0095 220036_s_at LIMR NM_018113 0.0092 223444_at SENP7 AL136599.1 0.0091 202595_s_at LEPROTL1 AF161461.1 0.0089 212560_at AV728268 0.0089 204718_at EPHB6 NM_004445 0.0089 227077_at BF432238 0.0089 205376_at INPP4B NM_003866 0.0088 219765_at FLJ12586 NM_024620 0.0087 218531_at FLJ21749 NM_025124 0.0086 218142_s_at LOC51185 NM_016302 0.0086 90610_at LRRN1 AI654857 0.0085 205089_at ZNF7 NM_003416 0.0084 228049_x_at AA523172 0.0084 213377_x_at C1S AI799007 0.0084 213743_at CCNT2 BE674119 0.0083 217895_at FLJ20758 NM_017952 0.008 217549_at AW574933 0.008 235432_at FLJ35693 BE865779 0.0079 222895_s_at BCL11B AA918317 0.0079 224163_s_at DMAP1 AL136657.1 0.0079 213539_at CD3D NM_000732.1 0.0078 214527_s_at PQBP1 AB041836.1 0.0078 212936_at DKFZP564D172 AI927701 0.0077 201257_x_at RPS3A NM_001006 0.0076 216033_s_at FYN S74774.1 0.0075 214855_s_at TULIP1 AL050050.1 0.0074 201054_at HNRPA0 BE966599 0.0073 224664_at AK023981.1 0.0073 228239_at C21orf51 AA148789 0.0073 209153_s_at TCF3 M31523.1 0.007 209539_at ARHGEF6 D25304.1 0.0069 204773_at IL11RA NM_004512 0.0069 231798_at NOG AL575177 0.0068 231124_x_at AI524095 0.0068 224367_at DJ79P11.1 AF251053.1 0.0067 223231_at CDA11 AF212250.1 0.0067 224688_at BE962299 0.0067 210018_x_at MALT1 AB026118.1 0.0067 49111_at N80935 0.0066 207840_at BY55 NM_007053 0.0072 206267_s_at MATK NM_002378 0.0066 219335_at FLJ12969 NM_022838 0.0066 228662_at AI492369 0.0066 213035_at KIAA0379 AI081194 0.0066 224479_s_at MRPL45 BC006235.1 0.0065 214470_at KLRB1 NM_002258.1 0.0065 202746_at ITM2A; E25A AL021786 0.0065 221488_s_at LOC51596 AF230924.1 0.0065 216497_at AL390738 0.0065 227640_s_at LOC222136 AI492167 0.0064 228240_at KIAA1337 AW952320 0.0064 215440_s_at FLJ10097 AL523320 0.0064 200912_s_at EIF4A2 NM_001967 0.0064 225455_at STAF42 AI760812 0.0063 224968_at MGC15407 AL518311 0.0063 220942_x_at E2IG5 NM_014367 0.0062 202698_x_at COX4I1 NM_001861 0.0062 213830_at TRD@ AW007751 0.0062 200666_s_at DNAJB1 NM_006145 0.0062 221691_x_at NPM1 AB042278.1 0.0061 224935_at EIF2S3 BE252813 0.0061 221264_s_at AF311304 NM_031214 0.0061 211678_s_at ZNF313 AF090934.1 0.0061 242292_at MGC34827 H12084 0.006 213034_at AB023216.1 0.006 222279_at AI669379 0.0059 239300_at AI632214 0.0059 209323_at PRKRIR AF081567.1 0.0059 204155_s_at KIAA0999 AA044154 0.0059 223092_at ANKH AF274753.1 0.0059 203932_at HLA-DMB NM_002118 0.0058 214800_x_at BTF3 R83000 0.0058 226718_at KIAA1163 AA001423 0.0058 212267_at KIAA0261 D87450.1 0.0057 212131_at DKFZP434D1335 AL117499.1 0.0057 240572_s_at BF436632 0.0056 210927_x_at JTB BC004239.1 0.0056 203581_at RAB4A BC002438.1 0.0056 205961_s_at PSIP2 NM_004682 0.0056 221493_at TSPYL AL136629.1 0.0055 212846_at KIAA0179 D80001.1 0.0055 225509_at LOC56757 AI862477 0.0055 203445_s_at OS4 NM_005730 0.0054 201665_x_at RPS17 NM_001021 0.0054 210502_s_at PPIE AF042386.1 0.0053 227878_s_at MGC10974 AI245026 0.0052 226816_s_at KIAA1143 AI745170 0.0052 212814_at KIAA0828 AB020635.1 0.0052 211761_s_at SIP BC005975.1 0.0051 211698_at CRI1 AF349444.1 0.0051 202741_at PRKACB AA130247 0.0051 212503_s_at KIAA0934 N31807 0.0051 200717_x_at RPL7 NM_000971 0.0051 243154_at AA215381 0.005 213588_x_at RPL14 AA838274 0.005 218592_s_at CECR5 NM_017829 0.0049 218263_s_at LOC58486 NM_021211 0.0049 227402_s_at MGC14595 AI056895 0.0049 212145_at MRPS27 D87453.1 0.0048 229264_at AI675152 0.0048 205005_s_at NMT2 AW293531 0.0048 200811_at CIRBP NM_001280 0.0048 222125_s_at PH-4 BC000580.1 0.0047 220952_s_at PEPP2 NM_019012 0.0047 204528_s_at NAP1L1 NM_004537 0.0047 214003_x_at RPS20 BF184532 0.0047 210017_at MALT1 AF070528.1 0.0047 52940_at SIGIRR AA085764 0.0046 206059_at ZNF91 NM_003430 0.0046 227567_at AL524467 0.0046 218437_s_at LZTFL1 NM_020347 0.0046 218039_at ANKT NM_016359 0.0046 208894_at HLA-DRA M60334.1 0.0046 203387_s_at TBC1D4 NM_014832 0.0045 230598_at KIAA1387 BF063821 0.0045 210653_s_at BCKDHB M55575.1 0.0045 243764_at AW085312 0.0045 202268_s_at APPBP1 NM_003905 0.0045 208745_at ATP5L AA917672 0.0044 216547_at AL353681 0.0044 223671_x_at CGI-30 AF248965.1 0.0043 218532_s_at FLJ20152 NM_019000 0.0043 218149_s_at DKFZp434K1210 NM_017606 0.0043 205259_at NR3C2 NM_000901 0.0042 227867_at AA005361 0.0042 227261_at KLF12 AA020010 0.0042 208657_s_at MSF AF142408.1 0.0041 206777_s_at CRYBB2 NM_000496 0.0041 202250_s_at H326 NM_015726 0.0041 211953_s_at KPNB3 NM_002271.1 0.0041 224734_at HMGB1 BF673940 0.0041 221523_s_at RAGD AL138717 0.004 212144_at UNC84B AL021707 0.004 227449_at AI799018 0.004 224841_x_at BF316352 0.004 215307_at AL109722.1 0.004 211005_at LAT AF036906.1 0.0039 223283_s_at SDCCAG33 AF039698.1 0.0039 204890_s_at LCK U07236.1 0.0039 212922_s_at HSKM-B AF070592.1 0.0038 231896_s_at DENR AF103800.1 0.0038 229614_at LOC162967 AI277652 0.0038 209471_s_at FNTA L00634.1 0.0037 225845_at BG253884 0.0037 212400_at AL043266 0.0037 214949_at AL050136.1 0.0037 228005_at BE677308 0.0037 203569_s_at OFD1 NM_003611 0.0037 216221_s_at PUM2 D87078.2 0.0037 207723_s_at KLRC3 NM_002261 0.004 219029_at FLJ21657 NM_022483 0.0036 221011_s_at LBH NM_030915 0.0036 217092_x_at AL031589 0.0035 218642_s_at MGC2217 NM_024300 0.0035 218314_s_at FLJ10726 NM_018195 0.0035 219093_at FLJ20701 NM_017933 0.0035 214317_x_at RPS9 BE348997 0.0034 214220_s_at ALMS1 AW003635 0.0034 225918_at LOC146346 AI742940 0.0034 213152_s_at SRP46 AI343248 0.0034 219599_at PRO1843 NM_018507 0.0033 219528_s_at BCL11B NM_022898 0.0033 205232_s_at PAFAH2 U89386.1 0.0032 230489_at CD5 AI797836 0.0032 212459_x_at SUCLG2 BF593940 0.0032 201877_s_at PPP2R5C NM_002719 0.0032 230224_at BF446577 0.0031 206542_s_at SMARCA2 AV725365 0.0031 214709_s_at KTN1 Z22551.1 0.0031 205255_x_at TCF7 NM_003202 0.0031 200763_s_at RPLP1 NM_001003 0.0031 216945_x_at PASK U79240.1 0.0031 238043_at AI913123 0.003 217950_at NOSIP NM_015953 0.003 222204_s_at RRN3 AL110238.1 0.0029 212675_s_at KIAA0582 AB011154.1 0.0029 202524_s_at SPOCK2 NM_014767 0.0028 235587_at LOC202781 BG400596 0.0027 210982_s_at HLA-DRA M60333.1 0.0027 213906_at MYBL1 AW592266 0.0027 41220_at KIAA0991 AB023208 0.0027 221596_s_at DKFZP564O0523 AL136619.1 0.0027 216191_s_at TRA@ X72501.1 0.0026 209112_at CDKN1B BC001971.1 0.0026 222824_at SEC61A2 AW237290 0.0025 215785_s_at CYFIP2 AL161999.1 0.0025 210212_x_at MTCP1 BC002600.1 0.0025 214482_at ZNF46 NM_006977.1 0.0024 202136_at BS69 BE250417 0.0024 225886_at AA156797 0.0024 205055_at ITGAE NM_002208 0.0024 212904_at KIAA1185 AB033011.1 0.0024 211796_s_at TRB@ AF043179.1 0.0024 217143_s_at TRD@ X06557.1 0.0024 205006_s_at NMT2 NM_004808 0.0023 228841_at AW299250 0.0023 228077_at MGC3207 AK026666.1 0.0022 209064_x_at PAIP1 AL136920.1 0.0022 209538_at ZNF32 U69645.1 0.0022 208667_s_at ST13 U17714.1 0.0022 205361_s_at PFDN4 AI718295 0.0022 209009_at ESD BC001169.1 0.0022 226143_at RAI1 BF984830 0.0022 202853_s_at RYK NM_002958 0.0022 203804_s_at OA48-18 NM_006107 0.0022 219762_s_at RPL36 NM_015414 0.0021 212205_at H2AV BF343852 0.0021 228007_at AL133101.1 0.0021 244189_at AI888657 0.002 212706_at CAPRI AB011110.2 0.002 201522_x_at SNRPN NM_003097 0.0019 213598_at HSA9761 W87688 0.0019 212893_at DKFZP564I052 AL080063.1 0.0019 209974_s_at BUB3 AF047473.1 0.0019 211929_at BE867771 0.0019 203386_at TBC1D4 AI650848 0.0018 229083_at AI672356 0.0018 201653_at CNIH NM_005776 0.0018 211542_x_at RPS10 BC004334.1 0.0018 202968_s_at DYRK2 Y09216.1 0.0018 235199_at AI969697 0.0018 55616_at CAB2 AI703342 0.0018 227630_at AW274445 0.0018 212672_at U82828 0.0017 213193_x_at TRB@ AL559122 0.0017 227979_at AU152162 0.0017 225310_at AI928344 0.0017 203485_at RTN1 NM_021136 0.0017 212928_at KIAA0721 AL050331 0.0017 219155_at RDGBB NM_012417 0.0017 212313_at MGC29816 BC004344.1 0.0017 204153_s_at MFNG NM_002405 0.0016 227049_at LOC147632 N21127 0.0016 36553_at CRIP2 AA669799 0.0016 225457_s_at DKFZP564I1171 BF528646 0.0016 203366_at POLG NM_002693 0.0016 211989_at SMARCE1 NM_003079.1 0.0016 201106_at GPX4 NM_002085 0.0016 239401_at AI668672 0.0015 226656_at CRTAP AW024741 0.0015 200909_s_at RPLP2 NM_001004 0.0015 200005_at EIF3S7 NM_003753 0.0014 227844_at WBP3 AI089932 0.0014 208319_s_at RBM3 NM_006743 0.0015 236198_at AW292872 0.0014 210915_x_at TRB@ M15564.1 0.0013 210105_s_at FYN M14333.1 0.0013 212826_s_at SLC25A6 AI961224 0.0013 208662_s_at TTC3 D84294.1 0.0013 206989_s_at SFRS2IP NM_004719 0.0013 32541_at calcineurin A S46622 0.0012 212734_x_at RPL13 AI186735 0.0012 224838_at FOXP1 AK026898.1 0.0012 208630_at HADHA BG472176 0.0012 211105_s_at NFATC1 U80918.1 0.0012 212637_s_at WWP1 BF131791 0.0012 224709_s_at AF131831.1 0.0012 235124_at BE502930 0.0012 224060_s_at CGI-30 AF157319.1 0.0012 223162_s_at AF116707.1 0.0012 200826_at SNRPD2 NM_004597 0.0011 214081_at TEM7 AF070526.1 0.0011 202165_at PPP1R2 NM_006241.1 0.0011 219351_at SEDL NM_014563 0.0011 201326_at CCT6A BE737030 0.0011 223282_at SDCCAG33 W60810 0.001 217019_at AL137162 0.001 231817_at KIAA1350 H25097 0.001 213189_at DKFZp667G2110 AL574514 0.001 216177_at RPL29 AW582267 0.001 210949_s_at EIF3S8 BC000533.1 0.001 213416_at ITGA4 BG532690 0.001 225553_at AL042817 0.001 213762_x_at RBMX AI452524 0.001 218528_s_at RNF38 NM_022781 0.001 218131_s_at p66alpha NM_017660 0.001 202232_s_at GA17 NM_006360 0.001 228843_at KIAA1337 AI824171 0.0009 213019_at RANBP6 AI123233 0.0009 225478_at BE783723 0.0009 213567_at BF431965 0.0009 212399_s_at KIAA0121 D50911.2 0.0009 224711_at AK025731.1 0.0009 208740_at SAP18 NM_005870.2 0.0009 229544_at AI690169 0.0009 214835_s_at SUCLG2 AF131748.1 0.0009 218572_at HSPC134 NM_014169 0.0008 218237_s_at SLC38A1 NM_030674 0.0008 211954_s_at KPNB3 NM_002271.1 0.0008 212690_at KIAA0725 AB018268.1 0.0008 201022_s_at DSTN NM_006870 0.0008 228039_at AI765169 0.0008 208753_s_at NAP1L1 BC002387.1 0.0008 215963_x_at Z98200 0.0008 43511_s_at AI201594 0.0008 212537_x_at RPL17 BE733979 0.0008 229686_at LOC286530 AI436587 0.0008 207196_s_at TNIP1 NM_006058 0.0008 208051_s_at PAIP1 NM_006451 0.0009 202217_at C21orf33 NM_004649 0.0007 34210_at CDW52 N90866 0.0007 200674_s_at RPL32 NM_000994 0.0007 235046_at AA456099 0.0007 219293_s_at PTD004 NM_013341 0.0007 226496_at FLJ22611 BG291039 0.0007 218919_at FLJ14007 NM_024699 0.0007 226030_at ACADSB BE897866 0.0007 224196_x_at CGI-30 AF161492.1 0.0007 201513_at TSN NM_004622.1 0.0007 224741_x_at BG329175 0.0007 213564_x_at LDHB BE042354 0.0007 205324_s_at FTSJ1 NM_012280 0.0007 222557_at STMN3 AL353715 0.0007 200093_s_at HINT1 N32864 0.0007 221931_s_at SEC13L AV701173 0.0006 208848_at ADH5 M30471.1 0.0006 200631_s_at SET NM_003011 0.0006 228853_at STYX AI652546 0.0006 229064_s_at DSCR1L2 BE670097 0.0006 212352_s_at TMP21 BE780075 0.0006 213239_at PIBF1 NM_006346.1 0.0006 241859_at BF593050 0.0006 225112_at BF245400 0.0006 218802_at FLJ20647 NM_017918 0.0006 217906_at KLHDC2 NM_014315 0.0006 225274_at BF247054 0.0006 244798_at AA398139 0.0006 226611_s_at p30 AA722878 0.0006 213347_x_at RPS4X AW132023 0.0006 219700_at TEM7 NM_020405 0.0005 217726_at COPZ1 NM_016057 0.0005 204891_s_at LCK NM_005356 0.0005 201993_x_at HNRPDL NM_005463 0.0005 201406_at RPL36A NM_021029 0.0005 200949_x_at RPS20 NM_001023 0.0005 214271_x_at RPL12 AA281332 0.0005 201030_x_at LDHB NM_002300 0.0005 235014_at LOC147727 BF345728 0.0005 212716_s_at M9 AW083133 0.0005 201217_x_at RPL3 NM_000967 0.0005 226680_at PEGASUS BF056303 0.0005 203113_s_at EEF1D NM_001960 0.0005 228174_at AI832363 0.0005 202408_s_at PRPF31 NM_015629 0.0005 240344_x_at AA424065 0.0005 200725_x_at RPL10 NM_006013 0.0005 213047_x_at SET AI278616 0.0004 218495_at UXT NM_004182 0.0004 218092_s_at HRB NM_004504 0.0004 211734_s_at FCER1A BC005912.1 0.0004 201892_s_at IMPDH2 NM_000884 0.0004 213890_x_at RPS16 AI200589 0.0004 221816_s_at NY-REN-34 BF055474 0.0004 221452_s_at MGC1223 NM_030969 0.0004 215096_s_at AU145746 0.0004 214143_x_at DPP7 AI560573 0.0004 225982_at UBTF BG341575 0.0004 222448_s_at UMP-CMPK AF112216.1 0.0004 217266_at Z97353 0.0004 212508_at MOAP1 AK024029.1 0.0004 213958_at CD6 AW134823 0.0004 212433_x_at RPS2 AA630314 0.0004 229844_at AI699465 0.0004 205804_s_at DJ434O14.3 NM_025228 0.0004 213969_x_at RPL29 BF683426 0.0004 210501_x_at AF119846.1 0.0004 205571_at LIPT1 NM_015929 0.0004 219939_s_at D1S155E NM_007158 0.0004 225958_at M6PR AI554106 0.0003 211727_s_at COX11 BC005895.1 0.0003 208929_x_at RPL13 BC004954.1 0.0003 200847_s_at MGC8721 NM_016127 0.0003 212085_at SLC25A6 AA916851 0.0003 220755_s_at C6orf48 NM_016947 0.0003 226062_x_at FLJ11280 AB037811.1 0.0003 37590_g_at AL109698 0.0003 218545_at FLJ11088 NM_018318 0.0003 218170_at CGI-111 NM_016048 0.0003 212406_s_at MYT1 AB028973.1 0.0003 229145_at LOC119504 AA541762 0.0003 234875_at rpL7a AJ224082 0.0003 209134_s_at RPS6 BC000524.1 0.0003 226272_at N25986 0.0003 213356_x_at HNRPA1 AL568186 0.0003 230479_at AI872374 0.0003 200823_x_at RPL29 NM_000992 0.0003 208796_s_at CCNG1 BC000196.1 0.0002 212270_x_at RPL17 BG168283 0.0002 213414_s_at RPS19 BE259729 0.0002 200802_at SARS NM_006513 0.0002 210463_x_at FLJ20244 BC002492.1 0.0002 229590_at RPL13 AI369389 0.0002 229253_at CTMP AI184512 0.0002 205987_at CD1C NM_001765 0.0002 201637_s_at FXR1 NM_005087 0.0002 201177_s_at UBA2 NM_005499 0.0002 212655_at BDG-29 AB011151.1 0.0002 210633_x_at KRT10 M19156.1 0.0002 226402_at AW055161 0.0002 209068_at HNRPDL D89678.1 0.0002 217379_at bA209A2.1 AL121934 0.0002 200888_s_at RPL23 NM_000978 0.0002 212191_x_at RPL13 AW574664 0.0002 200869_at RPL18A NM_000980 0.0002 224755_at SMBP BE621524 0.0002 201517_at NCBP2 BC001255.1 0.0001 212018_s_at DKFZP564M182 AK025446.1 0.0001 209422_at C20orf104 AL109965 0.0001 203314_at PGPL NM_012227 0.0001 211942_x_at BF979419 0.0001 212321_at SGPL1 AF144638.1 0.0001 212773_s_at TOMM20 BG165094 0.0001 214394_x_at EEF1D AI613383 0.0001 202231_at GA17 NM_006360 0.0001 228370_at SNURF BF114870 0.0001 200735_x_at NACA NM_005594 0.0001 226247_at PLEKHA1 AI346026 0.0001 202969_at Y09216.1 0.0001 214351_x_at RPL13 AA789278 0.0001 225391_at LOC93622 AL562398 P < 0.0001 212594_at PDCD4 N92498 P < 0.0001 221494_x_at M9 AF085358.1 P < 0.0001 203285_s_at HS2ST1 NM_012262 P < 0.0001 202649_x_at RPS19 NM_001022 P < 0.0001 40189_at set M93651 P < 0.0001 234873_x_at rpL7a AJ224080 P < 0.0001 235725_at AW055351 P < 0.0001 228416_at AI149508 P < 0.0001 205849_s_at UQCRB NM_006294 P < 0.0001 217286_s_at BC001805.1 P < 0.0001 217870_s_at UMP NM_016308 P < 0.0001 217747_s_at RPS9 NM_001013 P < 0.0001 211073_x_at RPL3 BC006483.1 P < 0.0001 200915_x_at KTN1 NM_004986 P < 0.0001 200834_s_at RPS21 NM_001024 P < 0.0001 200081_s_at RPS6 BE741754 P < 0.0001 214167_s_at RPLP0 AA555113 P < 0.0001 216342_x_at AL121916 P < 0.0001 232004_at AK001846.1 P < 0.0001 224910_at LOC91012 AL575747 P < 0.0001 218645_at ZNF277 NM_021994 P < 0.0001 218350_s_at GMNN NM_015895 P < 0.0001 213581_at PDCD2 BF446180 P < 0.0001 224763_at AL137450.1 P < 0.0001 216505_x_at AL118502 P < 0.0001 228959_at AI676241 P < 0.0001 226116_at BF064224 P < 0.0001 203582_s_at RAB4A NM_004578 P < 0.0001 211345_x_at EEF1G AF119850.1 P < 0.0001 200094_s_at EEF2 AI004246 P < 0.0001 220960_x_at RPL22 NM_000983 P < 0.0001 217988_at HEI10 NM_021178 P < 0.0001 217740_x_at RPL7A NM_000972 P < 0.0001 229588_at ERdj5 AA651899 P < 0.0001 217846_at QARS NM_005051 P < 0.0001 203413_at NELL2 NM_006159 P < 0.0001 213941_x_at RPS7 AI970731 P < 0.0001 211937_at EIF4B NM_001417.1 P < 0.0001 201064_s_at PABPC4 NM_003819 P < 0.0001 240806_at AI939308 P < 0.0001 226336_at PPIA T62044 P < 0.0001 201922_at YR-29 NM_014886 P < 0.0001 200689_x_at EEF1G NM_001404 P < 0.0001 206744_s_at ZNF237 NM_014242 P < 0.0001 211710_x_at RPL4 BC005817.1 P < 0.0001 216570_x_at AL096829 P < 0.0001 211988_at SMARCE1 NM_003079.1 P < 0.0001 208887_at EIF3S4 BC000733.1 P < 0.0001 204102_s_at EEF2 NM_001961 P < 0.0001 208635_x_at NACA BF976260 P < 0.0001 208752_x_at NAP1L1 AI888672 P < 0.0001 216032_s_at SDBCAG84 AF091085.1 P < 0.0001 210027_s_at APEX1 M80261.1 P < 0.0001 224719_s_at LOC113246 BG339653 P < 0.0001 212039_x_at RPL3 BG339228 P < 0.0001 200936_at RPL8 NM_000973 P < 0.0001 201254_x_at RPS6 NM_001010 P < 0.0001 221600_s_at PTD015 BC002752.1 P < 0.0001 213750_at AA928506 P < 0.0001 222229_x_at AL121871 P < 0.0001 212063_at CD44 BE903880 P < 0.0001 211955_at KPNB3 NM_002271.1 P < 0.0001 208768_x_at RPL22 D17652.1 P < 0.0001 238026_at AI458020 P < 0.0001 208826_x_at HINT1 U27143.1 P < 0.0001 201154_x_at RPL4 NM_000968 P < 0.0001 217807_s_at GLTSCR2 NM_015710 P < 0.0001 208646_at RPS14 AF116710.1 P < 0.0001 200705_s_at EEF1B2 NM_001959 P < 0.0001 201153_s_at MBNL1 NM_021038 P < 0.0001 200651_at GNB2L1 NM_006098 P < 0.0001 200715_x_at RPL13A BC000514.1 P < 0.0001 217969_at C11orf2 NM_013265 P < 0.0001 212042_x_at RPL7 BG389744 P < 0.0001 213864_s_at NAP1L1 AI985751 P < 0.0001 201812_s_at TOM7 NM_019059 P < 0.0001 202365_at MGC5139 BC004815.1 P < 0.0001 208754_s_at NAP1L1 AL162068.1 P < 0.0001 216305_s_at MRPL19 AC005034 P < 0.0001 212933_x_at RPL13 AA961748 P < 0.0001 221475_s_at RPL15 NM_002948.1 P < 0.0001 211927_x_at BE963164 P < 0.0001 211938_at PRO1843 BF247371 P < 0.0001 212967_x_at NAP1L1 AW148801 P < 0.0001 211623_s_at FBL M30448.1 P < 0.0001 228131_at ASE-1 BG111047 P < 0.0001 234512_x_at dJ486D24.1 AL136226 P < 0.0001 208697_s_at EIF3S6 BC000734.1 P < 0.0001 207721_x_at HINT1 NM_005340 P < 0.0001 211666_x_at RPL3 L22453.1 P < 0.0001 213263_s_at MAP3K12 AW025150 P < 0.0001 211939_x_at BTF3 X74070.1 P < 0.0001 201592_at EIF3S3 NM_003756 P < 0.0001 200036_s_at RPL10A NM_007104 P < 0.0001 213687_s_at RPL35A BE968801 P < 0.0001 213080_x_at RPL5 BF214492 P < 0.0001 200858_s_at RPS8 NM_001012 P < 0.0001 217719_at EIF3S6IP NM_016091 P < 0.0001 201258_at RPS16 NM_001020 P < 0.0001 210908_s_at PFDN5 AB055804.1 P < 0.0001 200089_s_at RPL4 AI953886 P < 0.0001 214042_s_at RPL22 AW071997 P < 0.0001 200937_s_at RPL5 NM_000969 P < 0.0001 221476_s_at RPL15 AF279903.1 P < 0.0001

The present invention includes a method for diagnosing systemic lupus erythematosus (SLE), by determining whether or not a mammal contains one or more cells that express at least 375 genes listed in Table 2A by at least 50% less, and/or in Table 2B to an extent at least two-fold more, than one or more controls; and diagnosing the mammal as having SLE if the mammal contains the one or more cells or diagnosing the mammal as not having SLE if the cell is not identified.

Based on more recently developed information due to the selection of potential SLE patients it was found that 2,626 of the 3004 genes were not previously identified by Baechler et al. or by the present inventors. Table 2D provides those new genes that are Unique to 3004 gene list. The 3004 genes were identified using the improved HG-U133 arrays, the previous papers used the HG-U95A array.

TABLE 2D Unique to 3004 gene list. Table 2D. Unique to 3004 genes list Affy ID common GenBank 200902_at 9-15 NM_004261 204176_at AB026190 AA808694 203505_at ABCA1 AF285167.1 203504_s_at ABCA1 NM_005502 205142_x_at ABCD1 NM_000033 202366_at ACADS NM_000017 226030_at ACADSB BE897866 203839_s_at ACK1 NM_005781 207071_s_at ACO1 NM_002197 201630_s_at ACP1 NM_004300 204638_at ACP5 NM_001611 204393_s_at ACPP NM_001099 223717_s_at ACRBP AB051833.1 202135_s_at ACTR1B NM_005735 227511_at ACTR2 BE963280 206833_s_at ACYP2 NM_001108 209765_at ADAM19 Y13786.2 205882_x_at ADD3 AI818488 201753_s_at ADD3 NM_019903 201752_s_at ADD3 AI763123 208848_at ADH5 M30471.1 204120_s_at ADK NM_001123 201281_at ADRM1 NM_007002 202144_s_at ADSL NM_000026 218735_s_at AF020591 AA349848 228323_at AF15Q14 BF248364 221264_s_at AF311304 NM_031214 204333_s_at AGA NM_000027 32836_at AGPAT1 U56417 225440_at AGPAT3 BE737251 200850_s_at AHCYL1 NM_006621 201782_s_at AIP NM_003977 201781_s_at AIP AL558532 244481_at AK2 BF196523 231029_at AK2 AI740541 224151_s_at AK3L1 AF183419.1 210625_s_at AKAP1 U34074.1 222024_s_at AKAP13 AK022014.1 221718_s_at AKAP13 M90360.1 208325_s_at AKAP13 NM_006738 227546_x_at AKIP AI738987 201272_at AKR1B1 NM_001628 204151_x_at AKR1C1 NM_001353 209160_at AKR1C3 AB018580.1 214259_s_at AKR7A2 AW074911 202139_at AKR7A2 NM_003689 201951_at ALCAM NM_001627.1 212224_at ALDH1A1 NM_000689.1 221589_s_at ALDH6A1 AF130089.1 221588_x_at ALDH6A1 AF130089.1 204290_s_at ALDH6A1 NM_005589 201612_at ALDH9A1 NM_000696 212606_at ALFY AI806395 212602_at ALFY AI806395 214220_s_at ALMS1 AW003635 223266_at ALS2CR2 AB038950.1 203043_at ALTE NM_004729 225554_s_at ANAPC7 AA131793 223092_at ANKH AF274753.1 218039_at ANKT NM_016359 222608_s_at ANLN AK023208.1 208103_s_at ANP32E NM_030920 201012_at ANXA1 NM_000700 213503_x_at ANXA2 BE908217 210427_x_at ANXA2 BC001388.1 201590_x_at ANXA2 NM_004039 209369_at ANXA3 M63310.1 201302_at ANXA4 NM_001153 201301_s_at ANXA4 BC000182.1 200782_at ANXA5 NM_001154 209174_s_at ANXA6 BC000978.2 201366_at ANXA7 NM_004034 222715_s_at AP1GBP1 BE856321 203300_x_at AP1S2 NM_003916 234068_s_at AP2A1 AC006942 203142_s_at AP3B1 NM_003664 222517_at AP3M1 AA700485 203526_s_at APC M74088.1 207845_s_at APC10 NM_014885 210027_s_at APEX1 M80261.1 221492_s_at APG3 AF202092.1 202511_s_at APG5L AK001899.1 32042_at APK1 antigen S72904 214875_x_at APLP2 AW001847 211404_s_at APLP2 BC004371.1 208702_x_at APLP2 BC000373.1 210873_x_at APOBEC3A U03891.2 221087_s_at APOL3 NM_014349 202268_s_at APPBP1 NM_003905 203025_at ARD1 NM_003491 201097_s_at ARF4 NM_001660 201096_s_at ARF4 AL537042 214182_at ARF6 AA243143 206177_s_at ARG1 NM_000045 219045_at ARHF NM_019034 203175_at ARHG NM_001665 211716_x_at ARHGDIA BC005851.1 201168_x_at ARHGDIA NM_004309 209539_at ARHGEF6 D25304.1 226789_at ARIH2 W84421 205020_s_at ARL4 NM_005738 218150_at ARL5 NM_012097 202208_s_at ARL7 BC001051.1 200950_at ARPC1A NM_006409 209788_s_at ARTS-1 AF183569.1 228131_at ASE-1 BG111047 222103_at ATF1 AI434345 210858_x_at ATM U26455.1 208442_s_at ATM NM_000051 212536_at ATP11B AB023173.1 209186_at ATP2A2 M23114.1 217801_at ATP5E NM_006886 208745_at ATP5L AA917672 216954_x_at ATP5O S77356.1 207809_s_at ATP6IP1 NM_001183 212383_at ATP6V0A1 AL096733.1 201172_x_at ATP6V0E NM_003945 214594_x_at ATP8B1 BG252666 36994_at ATPL M62762 37549_g_at B1 U87408 228760_at B2M AV725947 221485_at B4GALT5 NM_004776.1 221484_at B4GALT5 NM_004776.1 53076_at B4GALT7 AI040029 219079_at b5 + b5R NM_016230 217379_at bA209A2.1 AL121934 212768_s_at bA209J19.1 AL390736 227173_s_at BACH2 AW450901 202387_at BAG1 NM_004323 223220_s_at BAL AF307338.1 233186_s_at BANP AK001039.1 200041_s_at BAT1 NM_004640 225472_at BAT4 AF129756 228412_at BAZ2B AI991451 202331_at BCKDHA NM_000709 210653_s_at BCKDHB M55575.1 222891_s_at BCL11A AI912275 222895_s_at BCL11B AA918317 219528_s_at BCL11B NM_022898 205681_at BCL2A1 NM_004049 202518_at BCL7B NM_001707 219433_at BCoR NM_017745 202201_at BLVRB NM_000713 218050_at BM-002 NM_016617 232103_at BPNT1 AI439695 215460_x_at BRD1 AL080149.1 204520_x_at BRD1 NM_014577 203825_at BRD3 NM_007371 202227_s_at BRD8 NM_006696 219177_at BRIX NM_018321 204481_at BRPF1 NM_004634 202136_at BS69 BE250417 208677_s_at BSG AL550657 207722_s_at BTBD2 NM_017797 214800_x_at BTF3 R83000 211939_x_at BTF3 X74070.1 209846_s_at BTN3A2 BC002832.1 204820_s_at BTN3A3 NM_006994 203755_at BUB1B NM_001211 218048_at BUP NM_012071 207840_at BY55 NM_007053 205839_s_at BZRAP1 NM_004758 202096_s_at BZRP NM_000714 201725_at C10orf7 NM_006023 219953_s_at C11orf17 NM_020642 217969_at C11orf2 NM_013265 217928_s_at C11orf23 NM_018312 218220_at C12orf10 NM_021640 201216_at C12orf8 NM_006817 219164_s_at C14orf103 NM_018036 230790_x_at C14orf116 AI589978 222494_at C14orf116 AW051527 235369_at C14orf28 BF435952 234970_at C14orf47 AI741469 238523_at C16orf44 BF941204 227319_at C16orf44 AI693862 203437_at C17orf35 NM_003876 209574_s_at C18orf1 AI349506 207996_s_at C18orf1 NM_004338 219283_at C1GALT2 NM_014158 221210_s_at C1orf13 NM_030769 201794_s_at C1orf16 NM_014837 207571_x_at C1orf38 NM_004848 200620_at C1orf8 NM_004872 213377_x_at C1S AI799007 209422_at C20orf104 AL109965 219443_at C20orf13 NM_017714 233571_x_at C20orf149 AL121829 217835_x_at C20orf24 NM_018840 50314_i_at C20orf27 AI761506 217851_s_at CGI-107 NM_016045 225890_at C20orf72 AI678096 202217_at C21orf33 NM_004649 228239_at C21orf51 AA148789 228909_at C21orf86 AW131553 218018_at C21orf97 NM_021941.1 201299_s_at C2orf6 NM_018221 201298_s_at C2orf6 BC003398.1 218927_s_at C4S-2 NM_018641 218518_at C5orf5 NM_016603 229436_x_at C6.1A AI672084 224973_at C6orf37; AL078599 FLJ20037 221766_s_at C6orf37; AL078599 FLJ20037 220755_s_at C6orf48 NM_016947 202241_at C8FW NM_025195 200767_s_at C9orf10 NM_014612 223006_s_at C9orf5 BG402553 205950_s_at CA1 NM_001738 55616_at CAB2 AI703342 229908_s_at CAB56184 BF338332 32541_at calcineurin A S46622 catalytic subunit, calmodulin- dependent protein phosphatase catalytic subunit, CaM-PrP catalytic subunit 200622_x_at CALM3 AV685208 214315_x_at CALR AI348935 212953_x_at CALR BE251303 200757_s_at CALU NM_001219 241871_at CAMK4 AL529104 210349_at CAMK4 L24959.1 201850_at CAPG NM_001747 208683_at CAPN2 M23254.1 236077_at CAPN3 AI671238 200001_at CAPNS1 NM_001749 212706_at CAPRI AB011110.2 220066_at CARD15 NM_022162 224414_s_at CARD6 AF356193.1 218929_at CARF NM_017632 211208_s_at CASK AB039327.2 209970_x_at CASP1 M87507.1 207467_x_at CAST NM_001750 216903_s_at CBARA1 AK022697.1 203341_at CBF2 NM_005760 201518_at CBX1 NM_006807 227558_at CBX4 AI570531 213743_at CCNT2 BE674119 206983_at CCR6 NM_004367 207445_s_at CCR9 AF145439.1 201946_s_at CCT2 AL545982 201327_s_at CCT6A NM_001762 201326_at CCT6A BE737030 208654_s_at CD164 AF299343.1 205831_at CD2 NM_001767 220307_at CD244 NM_016382 206545_at CD28 NM_006139 213539_at CD3D NM_000732.1 230489_at CD5 AI797836 243931_at CD58 R64696 205173_x_at CD58 NM_001779 200985_s_at CD59 NM_000611 200983_x_at CD59 NM_000611.1 213958_at CD6 AW134823 200663_at CD63 NM_001780 214049_x_at CD7 AI829961 205627_at CDA NM_001785 221449_s_at CDA08 NM_030790 223231_at CDA11 AF212250.1 228516_at CDAN1 AI122852 213151_s_at CDC10 AU157515 203213_at CDC2 AL524035 212540_at CDC34 BG476661 209056_s_at CDC5L AW268817 224428_s_at CDCA7 AY029179.1 210622_x_at CDK10 AF153430.1 204252_at CDK2 M68520.1 204995_at CDK5R1 AL567411 202284_s_at CDKN1A NM_000389 209714_s_at CDKN3 AF213033.1 34210_at CDW52 N90866 224596_at CDW92 NM_022109.1 211657_at CEACAM6 M18728.1 203757_s_at CEACAM6 BC005008.1 219863_at CEB1 NM_016323 219505_at CECR1 NM_017424 218592_s_at CECR5 NM_017829 229460_at CED-6 AI927605 90265_at CENTA1 AW050627 213618_at CENTD1 AB011152.1 218421_at CERK NM_022766 209616_s_at CES1 S73751.1 203166_at CFDP1 NM_006324 202259_s_at CG005 NM_014887 202194_at CGI-100 AL117354 214658_at CGI-109 BG286537 218170_at CGI-111 NM_016048 203259_s_at CGI-130 BC001671.1 224196_x_at CGI-30 AF161492.1 224060_s_at CGI-30 AF157319.1 223671_x_at CGI-30 AF248965.1 201175_at CGI-31 NM_015959 217748_at CGI-45 NM_015999 226758_at CGI-59 AA043552 227551_at CGI-67 BE856596 223649_s_at CGI-69 AF317711.1 204605_at CGR19 NM_006568 206499_s_at CHC1 NM_001269 208807_s_at CHD3 U91543.1 209396_s_at CHI3L1 M80927.1 219492_at CHIC2 NM_012110 221675_s_at CHPT1 AF195624.1 203518_at CHS1 NM_000081 201897_s_at CKS1B NM_001826 219890_at CLECSF5 NM_013252 222934_s_at CLECSF9 BC000715.1 219529_at CLIC3 NM_004669 210859_x_at CLN3 AF077973.1 214252_s_at CLN5 AV700514 209143_s_at CLNS1A AF005422.1 201561_s_at CLSTN1 NM_014944 204050_s_at CLTA NM_001833 200960_x_at CLTA NM_007096 225439_at CML66 BC000967.2 203094_at CMT2 NM_014628 201653_at CNIH NM_005776 229143_at CNOT3 AW449353 226153_s_at CNOT6L AW514857 202163_s_at CNOT8 NM_004779 208912_s_at CNP BC001362.1 202757_at COBRA1 NM_015456 203073_at COG2 NM_007357 222391_at COL12A1; AL080250 BA209D8.1; DJ234P15.1 217726_at COPZ1 NM_016057 221676_s_at CORO1C BC002342.1 202698_x_at COX4I1 NM_001861 201119_s_at COX8 NM_004074 225129_at CPNE2 AW170571 202119_s_at CPNE3 NM_003909 239205_s_at CR1L BE552138 201988_s_at CREBL2 NM_001310.1 201200_at CREG NM_003851 211698_at CRI1 AF349444.1 208669_s_at CRI1 AF109873.1 36553_at CRIP2 AA669799 205474_at CRLF3 NM_015986 204349_at CRSP9 BC005250.1 209674_at CRY1 D83702.1 206777_s_at CRYBB2 NM_000496 219767_s_at CRYZL1 NM_005111 201160_s_at CSDA AL556190 202573_at CSNK1G2 AL530441 203575_at CSNK2A2 NM_001896 201360_at CST3 NM_000099 201201_at CSTB NM_000100 212905_at CSTF2T BF732638 212901_s_at CSTF2T BF732638 232233_at CT2; OKB1; AL050350 FLIPT2; dJ261K5.1 220957_at CTAGE-1 NM_022663 213979_s_at CTBP1 AA053830 218924_s_at CTBS NM_004388 202521_at CTCF NM_006565 229253_at CTMP AI184512 200765_x_at CTNNA1 NM_001903 200839_s_at CTSB NM_001908 200766_at CTSD NM_001909 202901_x_at CTSS BC002642.1 207614_s_at CUL1 NM_003592 203078_at CUL2 U83410.1 201424_s_at CUL4A NM_003589 215997_s_at CUL4B AV694732 210257_x_at CUL4B AF212995.1 202213_s_at CUL4B AI650819 204470_at CXCL1 NM_001511 204533_at CXCL10 NM_001565 209774_x_at CXCL2 M57731.1 204923_at CXorf9 AL023653 201634_s_at CYB5-M NM_030579 215785_s_at CYFIP2 AL161999.1 206515_at CYP4F3 NM_000896 219939_s_at D1S155E NM_007158 218443_s_at DAZAP1 NM_018959 214334_x_at DAZAP2 N34846 218981_at DC11 NM_020186 218447_at DC13 NM_020188 221434_s_at DC50 NM_031210 218482_at DC6 NM_020189 219678_x_at DCLRE1C NM_022487 201894_s_at DCN NM_001920 201082_s_at DCTN1 NM_004082 224791_at DDEF1 W03103 224790_at DDEF1 W03103 208895_s_at DDX18 BC003360.1 40255_at DDX28 AC004531 222875_at DDX33 AI720923 223140_s_at DDX36 AF217190.1 212107_s_at DDX9 BE910323 202447_at DECR1 NM_001359 231896_s_at DENR AF103800.1 221509_at DENR AB014731.1 223518_at DFFA AF087573.1 203277_at DFFA NM_004401 239342_at DGKZ AI567554 207556_s_at DGKZ NM_003646 205726_at DIAPH2 NM_006729 216260_at DICER1 AK001827.1 214779_s_at DJ1042K10.2 R51077 227712_at DJ122O8.2 AV682940 221311_x_at DJ122O8.2 NM_020466 222235_s_at dJ19N1.1 AL139812 205804_s_at DJ434O14.3 NM_025228 225876_at DJ462O23.2 T84558 234512_x_at dJ486D24.1 AL136226 217256_x_at dJ507I15.1 Z98950 224367_at DJ79P11.1 AF251053.1 217336_at dJ858M22.1 AL118510 226688_at DKFZp313N0621 AW003508 229949_at DKFZP434A0131 AA554827 227580_s_at DKFZP434B0335 BE616972 222250_s_at DKFZP434B168 AK001363.1 212886_at DKFZP434C171 AL080169.1 225487_at DKFZp434C1714 AI720705 222099_s_at DKFZP434D1335 AW593859 212132_at DKFZP434D1335 AL117499.1 212131_at DKFZP434D1335 AL117499.1 226224_at DKFZp434D1428 AI798846 227197_at DKFZP434D146 AI989530 229584_at DKFZp434H2111 AK026776.1 228171_s_at DKFZP434I216 AI056683 218149_s_at DKFZp434K1210 NM_017606 226071_at DKFZP434K1772 AF217974.1 220947_s_at DKFZP434P1750 NM_015527 207283_at DKFZp547I014 NM_020217 220985_s_at DKFZP564A022 NM_030954 222154_s_at DNAPTP6 AK002064.1 216028_at DKFZP564C152 AL049980.1 226665_at DKFZp564C236 AI986239 223155_at DKFZP564D1378 AL136681.1 212936_at DKFZP564D172 AI927701 212893_at DKFZP564I052 AL080063.1 225458_at DKFZP564I1171 BF528646 225457_s_at DKFZP564I1171 BF528646 217794_at DKFZP564J157 NM_018457 212018_s_at DKFZP564M182 AK025446.1 232661_s_at DKFZP564O0523 AF161422.1 221596_s_at DKFZP564O0523 AL136619.1 202537_s_at DKFZP564O123 AF151842.1 227375_at DKFZP566D1346 AA152232 205087_at DKFZP566K023 NM_015485 213497_at DKFZP586C1619 AL050374.1 213861_s_at DKFZP586D0919 N67741 223031_s_at DKFZp586I021 AL136921.1 221214_s_at DKFZP586J1624 NM_015537 213189_at DKFZp667G2110 AL574514 225117_at DKFZP727C091 AL137317.1 224745_x_at DKFZp761A052 AK026260.1 224593_at DKFZp761B128 BE965646 223228_at DKFZp761O17121 AL136553.1 235085_at DKFZp761P0423 BF739767 223983_s_at DKFZP762D096 BC004957.1 224578_at DKFZp762N0610 AB040903.1 225405_at DKFZp762N1910 AI151434 224163_s_at DMAP1 AL136657.1 200666_s_at DNAJB1 NM_006145 200664_s_at DNAJB1 BG537255 223054_at DNAJB11 BC001144.1 213919_at DNAJC4 AW024467 208873_s_at DP1 BC000232.1 208872_s_at DP1 AA814140 214143_x_at DPP7 AI560573 34689_at drn3 AJ243797 229064_s_at DSCR1L2 BE670097 201022_s_at DSTN NM_006870 213079_at DT1P1A10 AA223871 202703_at DUSP11 NM_003584 218660_at DYSF NM_003494 202348_s_at DYT1 BC000674.1 220942_x_at E2IG5 NM_014367 205419_at EBI2 NM_004951 220048_at EDAR NM_022336 203279_at EDEM NM_014674 230464_at EDG8 AI814092 204905_s_at EEF1E1 NM_004280 211345_x_at EEF1G AF119850.1 200689_x_at EEF1G NM_001404 204102_s_at EEF2 NM_001961 200094_s_at EEF2 AI004246 213113_s_at EEG1 AI630178 225159_s_at EG1 AW614072 206254_at EGF NM_001963 212830_at EGFL5 BF110421 227404_s_at EGR1 AI459194 201694_s_at EGR1 NM_001964 205249_at EGR2 NM_000399 208289_s_at EI24 NM_004879 201017_at EIF1A BE542684 225164_s_at EIF2AK4 AB037759.1 202461_at EIF2B2 NM_014239 215482_s_at EIF2B4 AJ011307 218287_s_at EIF2C1 NM_012199 201143_s_at EIF2S1 BC002513.1 208264_s_at EIF3S1 NM_003758 200597_at EIF3S10 BE614908 201592_at EIF3S3 NM_003756 208887_at EIF3S4 BC000733.1 208697_s_at EIF3S6 BC000734.1 217719_at EIF3S6IP NM_016091 200005_at EIF3S7 NM_003753 210949_s_at EIF3S8 BC000533.1 200912_s_at EIF4A2 NM_001967 211937_at EIF4B NM_001417.1 201437_s_at EIF4E NM_001968 224653_at EIF4EBP2 BG106477 224645_at EIF4EBP2 BG106477 208625_s_at EIF4G1 AF104913.1 208705_s_at EIF5 AL080102.1 225184_at ELD/OSA1 AK000921.1 225181_at ELD/OSA1 AK000921.1 201677_at ELF3 AI937543 55692_at ELMO2 W22924 231713_s_at ELP2 NM_018255.1 226115_at ELYS AI138934 203729_at EMP3 NM_001425 203370_s_at ENIGMA NM_005451 207691_x_at ENTPD1 NM_001776 234969_s_at EPC1 AK024117.1 204718_at EPHB6 NM_004445 226133_s_at EPI64 AW628835 235276_at EPSTI1 AA781795 227609_at EPSTI1 AA633203 219672_at ERAF NM_016633 225344_at ERAP140 AL035689 229588_at ERdj5 AA651899 218100_s_at ESRRBL1 NM_018010 224833_at ETS1 BE218980 204328_at EVER1 NM_007267 214958_s_at EVIN1 AK021738.1 212034_s_at EXO70 BE646386 50376_at EZF-2 AI278629 202345_s_at FABP5 NM_001444 207275_s_at FACL1 NM_001995 225032_at FAD104 AI141784 219253_at FAM11B NM_024121 217047_s_at FAM13A1 AK027138.1 202973_x_at FAM13A1 NM_014883 203974_at FAM16AX NM_012080 203420_at FAM8A1 NM_016255 205189_s_at FANCC NM_000136 203184_at FBN2 NM_001999 218539_at FBXO34 NM_017943 231769_at FBXO6 AF129536.1 201178_at FBXO7 NM_012179 212991_at FBXO9 AL137520.1 210638_s_at FBXO9 AF176704.1 223050_s_at FBXW5 BC000850.1 222729_at FBXW7 BE551877 205237_at FCN1 NM_002003 243968_x_at FCRH1 AI572979 224800_at FENS-1 AK022888.1 201798_s_at FER1L3 NM_013451 227811_at FGD3 AK000004.1 203033_x_at FH NM_000143 202041_s_at FIBP NM_004214 200709_at FKBP1A NM_000801 218003_s_at FKBP3 NM_002013 40850_at FKBP38 L37033 222848_at FKSG14 BC005400.1 208588_at FKSG2 NM_021631 212025_s_at FLII U80184 228497_at FLIPT1 AI279062 225180_at FLJ00166 W73788 205510_s_at FLJ10038 NM_017976 218008_at FLJ10099 NM_017994 227701_at FLJ10188 AK024739.1 217900_at FLJ10326 NM_018060 227854_at FLJ10335 BE620258 218397_at FLJ10335 NM_018062 223145_s_at FLJ10342 BC000764.1 234672_s_at FLJ10407 AL354612.1 218570_at FLJ10450 NM_018095 220071_x_at FLJ10460 NM_018097 220615_s_at FLJ10462 NM_018099 218155_x_at FLJ10534 AK026565.1 201917_s_at FLJ10618 AI694452 218314_s_at FLJ10726 NM_018195 211068_x_at FLJ10824 BC006456.1 218568_at FLJ10842 NM_018238 201307_at FLJ10849 AL534972 224849_at FLJ10890 AK023161.1 222690_s_at FLJ10902 AA194996 218999_at FLJ11000 NM_018295 219392_x_at FLJ11029 NM_018304 218545_at FLJ11088 NM_018318 202577_s_at FLJ11126 BC005162.1 221103_s_at FLJ11142 NM_018338 218610_s_at FLJ11151 NM_018340 223824_at FLJ11218 BC005364.1 222790_s_at FLJ11220 BE888593 222789_at FLJ11220 BE888593 223431_at FLJ11230 BC001818.1 226529_at FLJ11273 BF513060 226062_x_at FLJ11280 AB037811.1 211433_x_at FLJ11560 AL583909.1 220252_x_at FLJ11577 NM_025159 219056_at FLJ11712 NM_024570 218165_at FLJ11730 NM_022756 213064_at FLJ11806 N64802 213063_at FLJ11806 N64802 218268_at FLJ12085 NM_022771 219259_at FLJ12287 NM_022367 220576_at FLJ12377 NM_024989 224721_at FLJ12519 AI917328 224186_s_at FLJ12565 AL136729.1 219765_at FLJ12586 NM_024620 219627_at FLJ12700 NM_024910 222805_at FLJ12838 AI587307 219335_at FLJ12969 NM_022838 213607_x_at FLJ13052 BE551347 208919_s_at FLJ13052 BC001709.1 208918_s_at FLJ13052 BC001709.1 64899_at FLJ13055 AA209463 234947_s_at FLJ13188 AK026630.1 222151_s_at FLJ13386 AK023738.1 218395_at FLJ13433 NM_022496 225350_s_at FLJ13456 AV701229 218674_at FLJ13611 NM_024941 230509_at FLJ13952 BF528605 218919_at FLJ14007 NM_024699 79005_at FLJ14251 AA504646 220760_x_at FLJ14345 NM_024733 49329_at FLJ14360 N38751 235729_at FLJ14457 T93113 227585_at FLJ14600 AI359136 229063_s_at FLJ14642 AI912238 225226_at FLJ14743 AB051548.1 213031_s_at FLJ14888 AF161382.1 218986_s_at FLJ20035 NM_017631 230793_at FLJ20048 BE671038 228531_at FLJ20073 AA741307 219691_at FLJ20073 NM_017654 219163_at FLJ20079 NM_017656 234294_x_at FLJ20085 AL390164.1 38710_at FLJ20113 AL096714 218532_s_at FLJ20152 NM_019000 226811_at FLJ20202 AL046017 210463_x_at FLJ20244 BC002492.1 222496_s_at FLJ20273 AW241742 222816_s_at FLJ20281 BE676543 219062_s_at FLJ20281 NM_017742 52731_at FLJ20294 AI359466 223076_s_at FLJ20303 BC001041.1 223375_at FLJ20337 BC002720.1 219256_s_at FLJ20356 NM_018986 222547_at FLJ20373 AL561281 222654_at FLJ20421 AW295105 239598_s_at FLJ20481 AA789296 222887_s_at FLJ20507 AA034018 222748_s_at FLJ20511 AW194729 218905_at FLJ20530 NM_017864 217961_at FLJ20551 NM_017875 222244_s_at FLJ20618 AK000749.1 219352_at FLJ20637 NM_017912 218802_at FLJ20647 NM_017918 205684_s_at FLJ20686 NM_017925 207730_x_at FLJ20700 NM_017932 219093_at FLJ20701 NM_017933 223117_s_at FLJ20727 AW025093 217895_at FLJ20758 NM_017952 214749_s_at FLJ20811 AK000818.1 51200_at FLJ20850 AI744084 219315_s_at FLJ20898 NM_024600 212297_at FLJ20986 BF218804 224898_at FLJ21016 AA482548 218632_at FLJ21156 NM_024602 204665_at FLJ21168 NM_025073.1 229872_s_at FLJ21308 AA532655 219029_at FLJ21657 NM_022483 218531_at FLJ21749 NM_025124 225688_s_at FLJ21791 AK025444.1 65635_at FLJ21865 AL044097 220349_s_at FLJ21865 NM_022759 202809_s_at FLJ21919 NM_023015 223846_at FLJ21939 BC001139.1 222498_at FLJ21939 AI809206 220721_at FLJ21941 NM_025040 212918_at FLJ22028 BF219234 212917_x_at FLJ22028 BF219234 218277_s_at FLJ22060 NM_024612 64438_at FLJ22222 W19668 222143_s_at FLJ22405 AY007098.1 219100_at FLJ22559 NM_024928 223553_s_at FLJ22570 BC004564.1 220320_at FLJ22570 NM_024872 226496_at FLJ22611 BG291039 218454_at FLJ22662 NM_024829 218543_s_at FLJ22693 NM_022750 219698_s_at FLJ23017 NM_022840 220206_at FLJ23151 NM_024772 219506_at FLJ23221 NM_024579 218776_s_at FLJ23375 NM_024956 218883_s_at FLJ23468 NM_024629 229025_s_at FLJ25059 AW008627 229903_x_at FLJ25070 AI632212 227224_at FLJ25604 AW003297 225619_at FLJ30046 AV730849 217627_at FLJ30921 BE515346 228152_s_at FLJ31033 AK023743.1 230490_x_at FLJ31034 AI866717 235054_at FLJ31265 BF941983 221867_at FLJ31821 BF436315 226077_at FLJ31951 AL553942 229770_at FLJ31978 AI041543 223443_s_at FLJ32065 BC003669.1 213474_at FLJ32069 AI890903 225753_at FLJ32203 AW003280 228916_at FLJ32343 BE857467 238692_at FLJ33957 AL040935 227796_at FLJ34231 AW157773 235170_at FLJ34299 T52999 238025_at FLJ34389 AA706818 235432_at FLJ35693 BE865779 228961_at FLJ35954 R66534 229521_at FLJ36031 BE466274 226449_at FLJ36090 AI392933 217608_at FLJ36754 AW408767 235234_at FLJ36874 AA359612 225468_at FLJ36874 AI761804 225466_at FLJ36874 AI761804 235812_at FLJ38101 AI935115 223477_s_at FLJ38663 AF061733.1 230036_at FLJ39885 BE669858 226603_at FLJ39885 BE966604 36564_at FLJ90005 W27419 227410_at FLJ90022 AW264102 35254_at fln29 AB007447 243196_s_at FLN29 BF223703 207876_s_at FLNC NM_001458 201350_at FLOT2 NM_004475 204789_at FMNL NM_005892 202709_at FMOD NM_002023 219806_s_at FN5 NM_020179 213329_at FNBP2 AA742261 209471_s_at FNTA L00634.1 209189_at FOS BC004490.1 202768_at FOSB NM_006732 202724_s_at FOXO1A NM_002015 224838_at FOXP1 AK026898.1 223936_s_at FOXP1 BC005055.1 223287_s_at FOXP1 AF146696.1 205119_s_at FPR1 NM_002029 227948_at FRABIN AI949549 209864_at FRAT2 AB045118.1 235372_at FREB AW575245 218373_at FTS NM_022476 205324_s_at FTSJ1 NM_012280 200959_at FUS NM_004960 201637_s_at FXR1 NM_005087 201635_s_at FXR1 AI990766 207434_s_at FXYD2 NM_021603 202488_s_at FXYD3 NM_005971 217897_at FXYD6 NM_022003 216033_s_at FYN S74774.1 210105_s_at FYN M14333.1 200792_at G22P1 NM_001469 202275_at G6PD NM_000402 202232_s_at GA17 NM_006360 202231_at GA17 NM_006360 226002_at GAB1 AK022142.1 37028_at GADD34 U83981 203725_at GADD45A NM_001924 40225_at GAK D88435 202281_at GAK NM_005255 203066_at GALNAC4S-6ST NM_014863 218871_x_at GALNACT-2 NM_018590 206335_at GALNS NM_000512 223991_s_at GALNT2 AF130059.1 203397_s_at GALNT3 BF063271 203179_at GALT NM_000155 AFFX- GAPD M33197 HUMGAPDH/M33197_M_at 213453_x_at GAPD BF689355 218911_at GAS41 NM_006530 204793_at GASP NM_014710 235175_at GBP4 BG260886 202832_at GCC185 NM_014635 202922_at GCLC BF676980 202592_at GCN5L1 NM_001487 202182_at GCN5L2 NM_021078 208296_x_at GG2-1 NM_014350 219571_s_at GIOT-3 NM_016265 218030_at GIT1 NM_014030 229312_s_at GKAP42 BF434321 223354_x_at GL004 BC003191.1 201576_s_at GLB1 NM_000404 207972_at GLRA1 NM_000171 217807_s_at GLTSCR2 NM_015710 212737_at GM2A AL513583 222251_s_at GMEB2 AL133646.1 218350_s_at GMNN NM_015895 224681_at GNA12 BG028884 200651_at GNB2L1 NM_006098 204000_at GNB5 NM_016194 205042_at GNE NM_005476 207157_s_at GNG5 NM_005274 205495_s_at GNLY NM_006433 225853_at GNPNAT1 BE789346 225672_at GOLGA2 AL514295 215690_x_at GPAA1 AL157437.1 211060_x_at GPAA1 BC006383.1 201618_x_at GPAA1 NM_003801 223423_at GPCR1 BC000181.2 210279_at GPR18 AF261135.1 227769_at GPR27 AI703476 221345_at GPR43 NM_005306 223767_at GPR84 AF237762.1 202848_s_at GPRK6 BG423052 201106_at GPX4 NM_002085 209409_at GRB10 D86962.1 212244_at GRINL1A AI632774 202479_s_at GS3955 BC002637.1 215438_x_at GSPT1 BE906054 205541_s_at GSPT2 NM_018094 202554_s_at GSTM3 AL527430 201470_at GSTTLp28 NM_004832 202355_s_at GTF2F1 BC000120.1 221050_s_at GTPBP2 NM_019096 211275_s_at GYG AF087942.1 201554_x_at GYG NM_004130 223128_at H17 AL136923.1 209398_at H1F2 BC002649.1 204805_s_at H1FX NM_006026 225245_x_at H2AFJ BG386566 224301_x_at H2AFJ BC003602.1 207168_s_at H2AFY NM_004893 212205_at H2AV BF343852 209911_x_at H2BFB BC002842.1 202250_s_at H326 NM_015726 212873_at HA-1 BE349017 208630_at HADHA BG472176 208629_s_at HADHA BG472176 201036_s_at HADHSC NM_005327 221744_at HAN11 AK026008.1 219343_at HARC NM_017913 202042_at HARS NM_002109 214414_x_at HBA1 T50399 204848_x_at HBG1 NM_000559 213515_x_at HBG2 AI133353 204419_x_at HBG2 NM_000184 218423_x_at HCC8 NM_016516 202474_s_at HCFC1 NM_005334 215985_at HCGVIII-1 X92110.1 201209_at HDAC1 NM_004964 201833_at HDAC2 NM_001527 217988_at HEI10 NM_021178 33304_at HEM45 U88964 206087_x_at HFE NM_000410 206910_x_at HFL3 NM_005666 228071_at hIAN7 AA858297 59999_at HIF1AN W37897 232024_at HIMAP2 AI431931 208826_x_at HINT1 U27143.1 207721_x_at HINT1 NM_005340 200093_s_at HINT1 N32864 212641_at HIVEP2 AL023584 202934_at HK2 AI761561 205936_s_at HK3 NM_002115 203932_at HLA-DMB NM_002118 210982_s_at HLA-DRA M60333.1 208894_at HLA-DRA M60334.1 217456_x_at HLA-E M31183.1 210514_x_at HLA-G AF226990.2 214438_at HLX1 M60721.1 224734_at HMGB1 BF673940 202579_x_at HMGN4 NM_006353 218120_s_at HMOX2 D21243.1 201055_s_at HNRPA0 NM_006805 201054_at HNRPA0 BE966599 213356_x_at HNRPA1 AL568186 212626_x_at HNRPC AA664258 200751_s_at HNRPC BE898861 209330_s_at HNRPD D55674.1 235603_at HNRPU N95466 229204_at HP1-BP74 BE218428 212552_at HPCAL1 BE617588 214177_s_at HPIP AI935162 212259_s_at HPIP BF344265 216111_x_at hPMSR3 U38979 202854_at HPRT1 NM_000194 222881_at HPSE AF155510.1 219403_s_at HPSE NM_006665 203203_s_at HRB2 NM_007043 221170_at HRH4 AF312230.1 217736_s_at HRI NM_014413 209971_x_at HRI AI928526 224786_at HRIHFB2072 AL133580.1 228725_x_at HRMT1L1 BF003112 228722_at HRMT1L1 AI928367 221564_at HRMT1L1 AL570294 206445_s_at HRMT1L2 NM_001536 203285_s_at HS2ST1 NM_012262 227361_at HS3ST3B1 AA780067 217978_s_at HSA243666 NM_017582 222779_s_at HSA277841 AA706815 213598_at HSA9761 W87688 213540_at HSD17B8 AL031228 209657_s_at HSF2 M65217.1 212922_s_at HSKM-B AF070592.1 227026_at HSMPP8 AI016714 208815_x_at HSPA4 AB023420.1 221891_x_at HSPA8 AA704004 210338_s_at HSPA8 AB034951.1 208687_x_at HSPA8 AF352832.1 226148_at HSPC063 AU144305 218565_at HSPC109 BG223334 219006_at HSPC125 NM_014165 222438_at HSPC126 AK001934.1 217843_s_at HSPC126 NM_014166 218403_at HSPC132 NM_016399 218572_at HSPC134 NM_014169 221046_s_at HSPC135 NM_014170 226188_at HSPC159 AK025603.1 218728_s_at HSPC163 NM_014184 219356_s_at HSPC177 NM_016410 218085_at HSPC177 NM_015961 224516_s_at HSPC195 BC006428.1 223163_s_at HSPC216 BC000190.1 206976_s_at HSPH1 NM_006644 229574_at HSU53209 AI268231 204521_at HSU79274 NM_013300 226987_at HUMAGCGB W68720 213708_s_at HUMGT198A N40555 210970_s_at IBTK AF235049.1 211633_x_at ICAP-1A M24668.1 210785_s_at ICB-1 AB035482.1 201611_s_at ICMT NM_012405 201193_at IDH1 NM_005896 202069_s_at IDH3A AI826060 210418_s_at IDH3B AF023265.1 201509_at IDH3B NM_006899 208881_x_at IDI1 BC005247.1 204615_x_at IDI1 NM_004508 202439_s_at IDS NM_000202 201025_at IF2 NM_015904.1 202411_at IFI27 NM_005532 201315_x_at IFITM2 NM_006435 211676_s_at IFNGR1 AF056979.1 202105_at IGBP1 NM_001551 216401_x_at IGKV AJ408433 216207_x_at IGKV1D-13 AW408194 IGKV1D-8; L24; 216517_at L24a; IGKV1D8 Z00008 IGKV1OR15-118; IGKVP2; IGKV1OR118; IGKV1/OR-118; 217480_x_at IGKV1/OR15-118 M20812 234764_x_at IGL@ U96394.1 234366_x_at IGL@ AF103591.1 224342_x_at IGL@ L14452.1 217227_x_at IGL@ X93006.1 217179_x_at IGL@ X79782.1 207167_at IGSF2 NM_004258 202491_s_at IKBKAP NM_003640 205992_s_at IL15 NM_000585 209827_s_at IL16 NM_004513.1 220054_at IL23A NM_016584 204116_at IL2RG NM_000206 217805_at ILF3 NM_004516 201234_at ILK NM_004517 225244_at IMAGE3451454 AA019893 218637_at IMPACT NM_018439 201892_s_at IMPDH2 NM_000884 223871_x_at ING5 BC005370.1 202794_at INPP1 NM_002194 205376_at INPP4B NM_003866 223309_x_at IPLA2(GAMMA) BG025248 218617_at IPT NM_017646 214666_x_at IREB2 AI204981 224405_at IRTA2 AF343663.1 203882_at ISGF3G NM_006084 213416_at ITGA4 BG532690 205055_at ITGAE NM_002208 205786_s_at ITGAM NM_000632 205176_s_at ITGB3BP NM_014288 236267_at JAZ BG178775 221508_at JIK AF181985.1 220761_s_at JIK NM_016281 214037_s_at JM1 BF224247 210927_x_at JTB BC004239.1 203751_x_at JUND NM_005354.2 201015_s_at JUP NM_021991 212639_x_at K-ALPHA-1 AL581768 231513_at KCNJ2 BF111326 200922_at KDELR1 NM_006801 200700_s_at KDELR2 NM_006854 202441_at KEO4 AL568449 201488_x_at KHDRBS1 BC000717.1 214662_at KIAA0007 D26488.1 212896_at KIAA0052 D29641.2 203494_s_at KIAA0092 NM_014679 212399_s_at KIAA0121 D50911.2 213000_at KIAA0136 AP000693 212846_at KIAA0179 D80001.1 201462_at KIAA0193 NM_014766 212733_at KIAA0226 AI798908 38892_at KIAA0240 D87077 38487_at KIAA0246 D87433 212053_at KIAA0251 AK025504.1 212302_at KIAA0252 D87440.1 212267_at KIAA0261 D87450.1 204308_s_at KIAA0329 NM_014844 204291_at KIAA0335 NM_014803 41386_i_at KIAA0346 AB002344 226025_at KIAA0379 AV740426 213035_at KIAA0379 AI081194 212601_at KIAA0399 AB007859.2 201855_s_at KIAA0431 NM_015251 202255_s_at KIAA0440 NM_015556 203958_s_at KIAA0478 AI557467 213340_s_at KIAA0495 AB007964.1 212443_at KIAA0540 AB011112.2 213109_at KIAA0551 N25621 204075_s_at KIAA0562 NM_014704 212946_at KIAA0564 AK025432.1 212675_s_at KIAA0582 AB011154.1 212370_x_at KIAA0592 AL080183.1 212577_at KIAA0650 AA868754 212052_s_at KIAA0676 AB014576.1 212467_at KIAA0678 AB014578.1 212928_at KIAA0721 AL050331 212690_at KIAA0725 AB018268.1 203907_s_at KIAA0763 NM_014869 212814_at KIAA0828 AB020635.1 203321_s_at KIAA0863 NM_014913.1 212197_x_at KIAA0864 AB020671.1 212975_at KIAA0870 AB020677.2 212492_s_at KIAA0876 AW237172 217118_s_at KIAA0930 AK025608.1 212503_s_at KIAA0934 N31807 203051_at KIAA0945 NM_014952 41220_at KIAA0991 AB023208 214672_at KIAA0998 AB023215.1 204155_s_at KIAA0999 AA044154 213836_s_at KIAA1001 AW052084 212795_at KIAA1033 AL137753.1 215146_s_at KIAA1043 AB028966.1 212845_at KIAA1053 AB028976.1 226144_at KIAA1138 AB032964.1 226816_s_at KIAA1143 AI745170 226718_at KIAA1163 AA001423 212904_at KIAA1185 AB033011.1 224900_at KIAA1255 AK025960.1 225295_at KIAA1265 AB033091.1 224701_at KIAA1268 AA056548 221874_at KIAA1324 AB037745.1 228843_at KIAA1337 AI824171 228240_at KIAA1337 AW952320 227150_at KIAA1337 N46867 231817_at KIAA1350 H25097 225847_at KIAA1363 AB037784.1 230598_at KIAA1387 BF063821 225076_s_at KIAA1404 AA150460 226254_s_at KIAA1430 AI912523 230492_s_at KIAA1434 BE328402 223392_s_at KIAA1474 BF510588 225629_s_at KIAA1538 AI669498 227624_at KIAA1546 AB046766.1 233880_at KIAA1554 AL161961.1 225931_s_at KIAA1554 AI954660 225929_s_at KIAA1554 AI954660 226155_at KIAA1600 AB046820.1 231940_at KIAA1615 AI369933 227638_at KIAA1632 AI393091 224829_at KIAA1673 AA772278 231850_x_at KIAA1712 AB051499.1 228334_x_at KIAA1712 AI633734 225717_at KIAA1715 AI814587 228754_at KIAA1719 BG150485 226909_at KIAA1729 AW270138 233914_s_at KIAA1766 AK022478.1 233072_at KIAA1857 AI348745 224789_at KIAA1892 AL555107 225760_at KIAA1915 AI302244 44040_at KIAA1940 AA524093 228029_at KIAA1982 AW513477 228446_at KIAA2026 BF062203 226968_at KIF1B AK023184.1 209234_at KIF1B BF939474 202183_s_at KIF22 NM_007317 225205_at KIF3B AI819734 227261_at KLF12 AA020010 226646_at KLF2 AI831932 217906_at KLHDC2 NM_014315 219157_at KLHL2 NM_007246 226874_at KLHL8 BF591270 203723_at ITPKB NM_002221 235024_at Jade-1 AI868315 218517_at Jade-1 NM_024900 206785_s_at KLRC2 NM_002260 207723_s_at KLRC3 NM_002261 220646_s_at KLRF1 NM_016523 212878_s_at KNS2 AA284075 209408_at KNSL6 U63743.1 211762_s_at KPNA2 BC005978.1 201088_at KPNA2 NM_002266 225268_at KPNA4 AK021602.1 213573_at KPNB1 AA861608 213507_s_at KPNB1 BG249565 211955_at KPNB3 NM_002271.1 211954_s_at KPNB3 NM_002271.1 211953_s_at KPNB3 NM_002271.1 210633_x_at KRT10 M19156.1 207023_x_at KRT10 NM_000421 213287_s_at KRT10; K10; KPP X14487 234631_at KRTAP4-8 AJ406940.1 214709_s_at KTN1 Z22551.1 200915_x_at KTN1 NM_004986 206486_at LAG3 NM_002286 227438_at LAK AI760166 226280_at LAMB1 AA133277 212408_at LAP1B AK023204.1 217933_s_at LAP3 NM_015907 217810_x_at LARS NM_020117 211005_at LAT AF036906.1 207734_at LAX NM_017773 221011_s_at LBH NM_030915 200650_s_at LDHA NM_005566 243363_at LEF1 AA992805 221558_s_at LEF1 AF288571.1 220750_s_at LEPRE1 NM_022356 202595_s_at LEPROTL1 AF161461.1 202594_at LEPROTL1 NM_015344 201105_at LGALS1 NM_002305 203236_s_at LGALS9 NM_009587 218253_s_at LGTN NM_006893 206881_s_at LILRA3 NM_006865 211681_s_at LIM AF116705.1 203243_s_at LIM NM_006457 202193_at LIMK2 NM_005569 220036_s_at LIMR NM_018113 205571_at LIPT1 NM_015929 202089_s_at LIV-1 NM_012319 203713_s_at LLGL2 NM_004524 204249_s_at LMO2 NM_005574 226548_at LOC112868 AI935915 224719_s_at LOC113246 BG339653 229861_at LOC117584 N66669 229145_at LOC119504 AA541762 235802_at LOC122618 BE676703 213061_s_at LOC123803 AA643304 224981_at LOC124446 AL520900 226702_at LOC129607 AI742057 224643_at LOC133619 AL524045 230721_at LOC146174 BF436957 225918_at LOC146346 AI742940 227049_at LOC147632 N21127 235014_at LOC147727 BF345728 225633_at LOC147991 BF057717 226845_s_at LOC150678 AL036350 225415_at LOC151636 AA577672 213372_at LOC152559 AW173157 225956_at LOC153222 AL565238 225361_x_at LOC159090 AI341165 222673_x_at LOC159090 AI582192 213285_at LOC161291 AV691491 212697_at LOC162427 AL515874 229614_at LOC162967 AI277652 235568_at LOC199675 BF433657 241525_at LOC200772 AV700191 212640_at LOC201562 AV712602 235587_at LOC202781 BG400596 226760_at LOC203411 BF666325 227640_s_at LOC222136 AI492167 227035_x_at LOC222136 BE670798 225782_at LOC253827 BG171064 226169_at LOC283105 AW276572 221853_s_at LOC283820 N39536 213725_x_at LOC283824 AI693140 227680_at LOC284695 AI057121 225376_at LOC284734 BG480592 225661_at LOC284829 BF794958 213532_at LOC285148 AI797833 222662_at LOC286044 W60806 59433_at LOC286434 N32185 229686_at LOC286530 AI436587 223325_at LOC51061 AF131780.1 226910_at LOC51122 AW008502 218059_at LOC51123 NM_016096 218142_s_at LOC51185 NM_016302 223043_at LOC51234 AF151018.1 64432_at LOC51275 W05463 221488_s_at LOC51596 AF230924.1 225206_s_at LOC54516 NM_019041.1 217882_at LOC55831 NM_018447 219125_s_at LOC55974 NM_018845 227748_at LOC56267 AI971694 225509_at LOC56757 AI862477 208424_s_at LOC57019 NM_020313 218263_s_at LOC58486 NM_021211 225346_at LOC80298 NM_025198.1 225341_at LOC80298 NM_025198.1 223248_at LOC83693 AK025626.1 223773_s_at LOC85028 AF277181.1 227172_at LOC89894 BC000282.1 225320_at LOC90550 AA579630 224951_at LOC91012 BE348305 224910_at LOC91012 AL575747 225030_at LOC91272 AA824341 225795_at LOC91689 AV751709 213119_at LOC91974 AW058600 225391_at LOC93622 AL562398 228648_at LRG AA622495 201186_at LRPAP1 NM_002337 90610_at LRRN1 AI654857 209841_s_at LRRN3 AL442092.1 211747_s_at LSM5 BC005938.1 204559_s_at LSM7 NM_016199 235470_at LSM8 AI766279 203523_at LSP1 NM_002339 229891_x_at LSR7 AI630799 202245_at LSS AW084510 207339_s_at LTB NM_002341 206584_at LY96 NM_015364 210754_s_at LYN M79321.1 202626_s_at LYN NM_002350 204458_at LYPLA3 AL110209.1 218437_s_at LZTFL1 NM_020347 225958_at M6PR AI554106 221494_x_at M9 AF085358.1 212716_s_at M9 AW083133 204857_at MAD1L1 NM_003550 203077_s_at MADH2 NM_005901 205398_s_at MADH3 NM_005902 202526_at MADH4 U44378.1 207922_s_at MAEA NM_005882 222670_s_at MAFB AW135013 218559_s_at MAFB NM_005461 209536_s_at MAGED2 AF320070.1 218573_at MAGEH1 NM_014061 223218_s_at MAIL AB037925.1 218918_at MAN1C1 NM_020379 227219_x_at MAP1LC3A BE857601 215498_s_at MAP2K3 AA780381 205698_s_at MAP2K6 NM_002758 213263_s_at MAP3K12 AW025150 205192_at MAP3K14 NM_003954 243_g_at MAP4 M64571 203552_at MAP4K5 AW298170 224621_at MAPK1 AA129773 217956_s_at MASA NM_021204 207041_at MASP2 NM_006610 227833_s_at MBD6 AW207668 218411_s_at MBIP NM_016586 201151_s_at MBNL NM_021038.1 201153_s_at MBNL1 NM_021038 239264_at MCCC2 AW973078 200798_x_at MCL1 NM_021960 200797_s_at MCL1 NM_021960.1 202107_s_at MCM2 NM_004526 230110_at MCOLN2 AV713773 219209_at MDA5 NM_022168 236814_at MDM4 AA745971 218992_at MDS030 NM_018465 214684_at MEF2A X63381.1 208819_at MEL BC002977.1 204825_at MELK NM_014791 212673_at METAP1 D42084.1 201155_s_at MFN2 NM_014874 204153_s_at MFNG NM_002405 205740_s_at MGC10433 NM_024321 208094_s_at MGC10471 NM_030818 223303_at MGC10966 BC004347.1 227878_s_at MGC10974 AI245026 223318_s_at MGC10974 BC004393.1 221452_s_at MGC1223 NM_030969 229070_at MGC12335 AA470369 227814_at MGC12928 AA789329 224452_s_at MGC12966 BC006110.1 224518_s_at MGC13105 BC006436.1 231241_at MGC13114 AW469714 57516_at MGC13138 AA746290 227402_s_at MGC14595 AI056895 225501_at MGC14797 AK027039.1 224968_at MGC15407 AL518311 227686_at MGC15763 BE465433 227935_s_at MGC16202 AA522681 225889_at MGC17922 BF475280 224759_s_at MGC17943 AK001731.1 225330_at MGC18216 AL044092 221893_s_at MGC20727 N32831 214061_at MGC21654 AI017564 218642_s_at MGC2217 NM_024300 238439_at MGC22805 AI925518 244716_x_at MGC23244 AI817976 223177_at MGC24302 AL515061 219812_at MGC2463 NM_024070 228856_at MGC2474 AV698149 221559_s_at MGC2488 BC000229.1 223252_at MGC2641 BC000755.1 227726_at MGC2647 BF057084 204985_s_at MGC2650 NM_024108 238077_at MGC27385 T75480 219111_s_at MGC2835 NM_024072 226466_s_at MGC29729 AL544688 212313_at MGC29816 BC004344.1 222129_at MGC3035 AK026155.1 221253_s_at MGC3178 NM_030810 228089_x_at MGC3196 H72927 223269_at MGC3200 BC004355.1 228077_at MGC3207 AK026666.1 217795_s_at MGC3222 W74580 226464_at MGC33365 BE348597 242292_at MGC34827 H12084 225941_at MGC39820 BE465037 225940_at MGC39820 BE465037 225065_x_at MGC40157 AI826279 227313_at MGC40499 AI870866 212959_s_at MGC4170 AK001821.1 214214_s_at MGC4189 AU151801 228099_at MGC41917 AI805301 228155_at MGC4248 BF512388 224435_at MGC4248 BC005871.1 222483_at MGC4342 AW664179 218130_at MGC4368 NM_024510 227379_at MGC44669 AI734993 225314_at MGC45416 BG291649 235005_at MGC4562 AA192361 207786_at MGC4663 NM_024514 202365_at MGC5139 BC004815.1 209702_at MGC5149 U79260.1 220949_s_at MGC5242 NM_024033 225160_x_at MGC5370 AI952357 242463_x_at MGC5384 AI620827 208137_x_at MGC5384 NM_030972 200847_s_at MGC8721 NM_016127 227158_at MGC9912 AU149257 212020_s_at MKI67 BF001806 222530_s_at MKKS AF275813.1 209467_s_at MKNK1 BC002755.1 209845_at MKRN1 AF117233.1 201285_at MKRN1 NM_013446 231974_at MLL2 AI742164 227528_s_at MLL2 AI394529 227527_at MLL2 AI394529 226100_at MLL5 AI762876 223189_x_at MLL5 AW082219 205408_at MLLT10 NM_004641 204918_s_at MLLT3 NM_004529 204917_s_at MLLT3 AV756536 225628_s_at MLLT6 BE677453 207329_at MMP8 NM_002424 212462_at MORF AF113514.1 223849_s_at MOV10 BC002548.1 202974_at MPP1 NM_002436 209858_x_at MPPE1 BC002877.1 204387_x_at MRP63 NM_024026 223154_at MRPL1 AF212225.1 216305_s_at MRPL19; RLX1; AC005034 RPML15; MRP- L15; KIAA0104; MGC20675; RPML15 KIAA0104 224331_s_at MRPL36 AB049654.1 222466_s_at MRPL42 AL136659.1 224479_s_at MRPL45 BC006235.1 203801_at MRPS14 NM_022100.1 203800_s_at MRPS14 NM_022100.1 221693_s_at MRPS18A AB049952.1 228019_s_at MRPS18C AV758614 218001_at MRPS2 NM_016034 223448_x_at MRPS22 AF063603.1 225477_s_at MRPS25 AL138444 212145_at MRPS27 D87453.1 224333_s_at MRPS5 AB049940.1 224919_at MRPS6 AL555227 218538_s_at MRS2L NM_020662 219607_s_at MS4A4A NM_024021 231078_at MSCP H69701 221920_s_at MSCP BE677761 208657_s_at MSF AF142408.1 209421_at MSH2 U04045.1 218499_at MST4 NM_016542 212859_x_at MT1E BF217861 217165_x_at MT1F M10943 204745_x_at MT1G NM_005950 204326_x_at MT1L NM_002450 216862_s_at MTCP1 Z24459 210212_x_at MTCP1 BC002600.1 202197_at MTMR3 NM_021090 210386_s_at MTX1 BC001906.1 225294_s_at MUM2 BG340967 204798_at MYB NM_005375 213906_at MYBL1 AW592266 221820_s_at MYST1 AK024102.1 212406_s_at MYT1 AB028973.1 214775_at N4BP3 AW139448 208635_x_at NACA BF976260 200735_x_at NACA NM_005594 202926_at NAG NM_015909 218064_s_at NAKAP95 NM_014371 47530_at NAP1 AA748492 208751_at NAPA BC001165.1 206491_s_at NAPA NM_003827 221207_s_at NBEA NM_015678 202906_s_at NBS1 AI796269 211685_s_at NCALD AF251061.1 201517_at NCBP2 BC001255.1 214084_x_at NCF1 AW072388 204961_s_at NCF1 NM_000265 209106_at NCOA1 U19179.1 208979_at NCOA6 AF128458.1 202000_at NDUFA6 BC002772.1 218201_at NDUFB2 NM_004546 203371_s_at NDUFB3 NM_002491 213116_at NEK3 AI191920 203413_at NELL2 NM_006159 217979_at NET-6 NM_014399 222774_s_at NETO2 AI335263 208926_at NEU1 U84246.1 226103_at nexilin AF114264.1 243099_at NFAM1 AW271350 230322_at NFAM1 AI492017 224984_at NFAT5 W61007 211105_s_at NFATC1 U80918.1 210162_s_at NFATC1 U08015.1 210555_s_at NFATC3 U85430.1 203574_at NFIL3 NM_005384 209636_at NFKB2 BC002844.1 224716_at NFKBIE BG163267 206968_s_at NFRKB NM_006165 218129_s_at NFYB NM_006166 218127_at NFYB AI804118 201377_at NICE-4 NM_014847 39729_at NKEFB L19185 201268_at NME2 NM_002512 218057_x_at NOC4 NM_006067 231798_at NOG AL575177 217950_at NOSIP NM_015953 221499_s_at NPEPL1 AF008936.1 221691_x_at NPM1 AB042278.1 203814_s_at NQO2 NM_000904 225768_at NR1D2 AI761621 216321_s_at NR3C1 X03348.1 208709_s_at NRD1 U64898.1 204081_at NRGN NM_006176 209025_s_at NSAP1 AF037448.1 223298_s_at NT5C3 AF312735.1 203939_at NT5E NM_002526 203718_at NTE NM_006702 207152_at NTRK2 NM_006180 200649_at NUCB1 BC002356.1 226880_at NUCKS AL035851 217802_s_at NUCKS NM_022731 210574_s_at NUDC AF241788.1 230219_at NUDE1 AI831952 241596_at NUDT10 AL045306 229803_s_at NUDT3 AI347000 218375_at NUDT9 NM_024047 212709_at NUP160 D83781.1 204435_at NUPL1 NM_014778 222512_at NYREN18 AF300717.1 213815_x_at NY-REN-24 AI913329 221816_s_at NY-REN-34 BF055474 219644_at NY-REN-58 NM_016122 203804_s_at OA48-18 NM_006107 232666_at OAS3 R13458 218400_at OAS3 NM_006187 229854_at OBSCN AW614056 208503_s_at ODAG NM_021167 200790_at ODC1 NM_002539 203569_s_at OFD1 NM_003611 215136_s_at OIP2 AL050353.1 225291_at OLD35 AI967971 224392_s_at OPN3 AF303588.1 224707_at ORF1-FL49 AL522667 203445_s_at OS4 NM_005730 215399_s_at OS-9 AI683900 200714_x_at OS-9 NM_006812 209221_s_at OSBPL2 AI753638 227645_at P101-PI3K BF892532 226611_s_at p30 AA722878 200654_at P4HB J02783.1 208639_x_at P5 BC001312.1 207668_x_at P5 NM_005742 218131_s_at p66alpha NM_017660 201544_x_at PABPN1 BF675004 223565_at PACAP AF151024.1 220001_at PADI4 NM_012387 200815_s_at PAFAH1B1 L13386.1 205232_s_at PAFAH2 U89386.1 225622_at PAG NM_018440.1 209064_x_at PAIP1 AL136920.1 208051_s_at PAIP1 NM_006451 218271_s_at PARL NM_018622 37965_at PARVB AA181053 216945_x_at PASK U79240.1 213534_s_at PASK D50925.1 226223_at PAWR AI189509 221969_at PAX5 BF510692 217738_at PBEF BF575514 232349_x_at PC326 BF671187 214512_s_at PC4 NM_006713.1 238792_at PCNX BF209668 213581_at PDCD2 BF446180 228993_s_at PDCD4 AV728606 212594_at PDCD4 N92498 219275_at PDCD5 NM_004708 204449_at PDCL NM_005388 222317_at PDE3B AA888858 214582_at PDE3B NM_000753.1 208591_s_at PDE3B NM_000922 206792_x_at PDE4C NM_000923 218718_at PDGFC NM_016205 203857_s_at PDIR NM_006810 226452_at PDK1 AU146532 202671_s_at PDXK NM_003681 203097_s_at PDZ-GEF1 NM_014247 218025_s_at PECI NM_006117 226680_at PEGASUS BF056303 218472_s_at PELO NM_015946 220952_s_at PEPP2 NM_019012 49878_at PEX16 AA523441 205361_s_at PFDN4 AI718295 228499_at PFKFB4 AL038787 201037_at PFKP NM_002627 204992_s_at PFN2 NM_002628 200886_s_at PGAM1 NM_002629 201118_at PGD NM_002631 203314_at PGPL NM_012227 201701_s_at PGRMC2 NM_006320 222125_s_at PH-4 BC000580.1 231812_x_at PHAX AK023255.1 217952_x_at PHF3 AW189430 215718_s_at PHF3 AI949220 222631_at PI4K2B AI862887 212881_at PIASY NM_015897.1 213239_at PIBF1 NM_006346.1 212506_at PICALM AL135735 214151_s_at PIGB AU144243 216593_s_at PIGCP1 AB000359 207105_s_at PIK3R2 NM_005027 210417_s_at PIK4CB U81802.1 218773_s_at PILB NM_012228 228972_at PITPN AI028602 218667_at PJA1 NM_022368 222468_at PKD1-like W58365 203688_at PKD2 NM_000297 202732_at PKIG NM_007066 201251_at PKM2 NM_002654 205372_at PLAG1 NM_002655 204613_at PLCG2 NM_002661 205934_at PLCL1 NM_006226 216218_s_at PLCL2 AK023546.1 201050_at PLD3 NM_012268 222826_at PLDN BC004819.1 203471_s_at PLEK NM_002664 226247_at PLEKHA1 AI346026 201136_at PLP2 NM_002668 211012_s_at PML BC000080.1 203366_at POLG NM_002693 220113_x_at POLR1B NM_019014 202635_s_at POLR2K NM_005034 201876_at PON2 NM_000305 204839_at POP5 NM_015918 212200_at POU2F1 AB014592.1 204436_at PP1628 NM_025201 205661_s_at PP591 NM_025207 227447_at PPAP2A AA525163 203497_at PPARBP NM_004774 200661_at PPGB NM_000308 226336_at PPIA T62044 217602_at PPIA AI191118 210502_s_at PPIE AF042386.1 201489_at PPIF BC005020.1 208995_s_at PPIG U40763.1 228788_at PPIL2 AA425358 224364_s_at PPIL3 AF251049.1 235113_at PPIL5 AA742244 204788_s_at PPOX NM_000309 202014_at PPP1R15A NM_014330 202165_at PPP1R2 NM_006241.1 202883_s_at PPP2R1B T79584 202313_at PPP2R2A NM_002717 201877_s_at PPP2R5C NM_002719 229322_at PPP2R5E BF529715 32540_at PPP3CC AI762547 207000_s_at PPP3CC NM_005605 201594_s_at PPP4R1 NM_005134 225426_at PPP6C BF240782 214527_s_at PQBP1 AB041836.1 207769_s_at PQBP1 NM_005710 205277_at PRDM2 NM_012231 203057_s_at PRDM2 NM_015866.1 208680_at PRDX1 L19184.1 201619_at PRDX3 NM_006793 201923_at PRDX4 NM_006406 200845_s_at PRDX6 NM_004905 224909_s_at PRex1 BF308645 201858_s_at PRG1 J03223.1 232517_s_at PRIC285 AL121829 228230_at PRIC285 AL121829 202742_s_at PRKACB NM_002731 202741_at PRKACB AA130247 201805_at PRKAG1 NM_002733 213052_at PRKAR2A BF246917 218764_at PRKCH NM_024064 206099_at PRKCH NM_006255 210039_s_at PRKCQ L01087.1 209323_at PRKRIR AF081567.1 222231_s_at PRO1855 AK025328.1 225517_at PRO1914 AW236976 228401_at PRO2000 AI656807 202408_s_at PRPF31 NM_015629 228253_at PRSS25 AI917716 219669_at PRV1 NM_020406 202880_s_at PSCD1 NM_004762 221036_s_at PSFL NM_031301 205961_s_at PSIP2 NM_004682 201532_at PSMA3 NM_002788 216088_s_at PSMA7 AL078633 200039_s_at PSMB2 NM_002794 228204_at PSMB4 AA630330 209040_s_at PSMB8 U17496.1 201068_s_at PSMC2 NM_002803 200814_at PSME1 NM_006263 209853_s_at PSME3 BC002684.1 200988_s_at PSME3 NM_005789 200987_x_at PSME3 AA758755 218371_s_at PSPC1 NM_018282 219938_s_at PSTPIP2 NM_024430 219293_s_at PTD004 NM_013341 221600_s_at PTD015 BC002752.1 200773_x_at PTMA NM_002823 205171_at PTPN4 NM_002830 202897_at PTPNS1 AB023430.1 203554_x_at PTTG1 NM_004219 200677_at PTTG1IP NM_004339 216221_s_at PUM2 D87078.2 201606_s_at PWP1 BE796924 217846_at QARS NM_005051 212262_at QKI AF142419.1 201482_at QSCN6 NM_002826 222981_s_at RAB10 BC000896.1 200863_s_at RAB11A AI215102 208724_s_at RAB1A BC000905.1 203885_at RAB21 NM_014999 225074_at RAB2B AA531016 202372_at RAB3-GAP150 BF240652 230274_s_at RAB5EP BF589088 211961_s_at RAB7 AK000826.1 218700_s_at RAB7L1 BC002585.1 218699_at RAB7L1 BG338251 203573_s_at RABGGTA NM_004581 208640_at RAC1 BG292367 200608_s_at RAD21 NM_006265 238656_at RAD50 AA877043 37793_r_at RAD51D AF034956 221523_s_at RAGD AL138717 226143_at RAI1 BF984830 214435_x_at RALA NM_005402.1 222680_s_at RAMP AK001261.1 213019_at RANBP6 AI123233 210097_s_at RARG-1 AF130102.1 214369_s_at RASGRP2 AI688812 208206_s_at RASGRP2 NM_005825 240862_at RASGRP4 AA923524 211950_at RBAF600 AB007931.1 212783_at RBBP6 AK026954.1 212781_at RBBP6 AK026954.1 201092_at RBBP7 NM_002893 203344_s_at RBBP8 NM_002894 212168_at RBM12 AB018308.1 208319_s_at RBM3 NM_006743 213762_x_at RBMX AI452524 218117_at RBX1 NM_014248 212820_at RC3 AB020663.1 218352_at RCBTB1 NM_018191 201486_at RCN2 NM_002902 219155_at RDGBB NM_012417 217776_at RDH11 AF167438.1 217775_s_at RDH11 NM_016026 224009_x_at RDHL AF240697.1 223952_x_at RDHL AF240698.1 212397_at RDX AL137751.1 218599_at REC8 NM_005132 210568_s_at RECQL BC001052.1 206036_s_at REL NM_002908 220570_at RETN NM_020415 218428_s_at REV1L NM_016316 204127_at RFC3 BC000149.2 235816_s_at Rgr AI867408 204336_s_at RGS19 NM_005873 201453_x_at RHEB2 NM_005614 216049_at RHOBTB3 AK023621.1 222793_at RIG-I AK023661.1 218943_s_at RIG-I NM_014314 209684_at RIN2 AL136924.1 219041_s_at RIP60 NM_014374 218217_at RISC NM_021626 214519_s_at RLN2 NM_005059.1 201788_at RNAHP NM_007372 218496_at RNASEH1 BG534527 208632_at RNF10 AL578551 218528_s_at RNF38 NM_022781 202683_s_at RNMT NM_003799 212430_at RNPC1 AL109955 208270_s_at RNPEP NM_020216 239049_at ROCK1 BF514509 213637_at ROK1 BE503392 212834_at ROK1 AK001652.1 212774_at RP58 AJ223321 222490_at RPC5 AK023160.1 210573_s_at RPC62 BC004424.1 209382_at RPC62 U93867.1 225039_at RPE AV699857 200725_x_at RPL10 NM_006013 200036_s_at RPL10A NM_007104 214271_x_at RPL12 AA281332 229590_at RPL13 AI369389 214351_x_at RPL13 AA789278 212933_x_at RPL13 AA961748 212734_x_at RPL13 AI186735 212191_x_at RPL13 AW574664 208929_x_at RPL13 BC004954.1 200716_x_at RPL13A NM_012423 200715_x_at RPL13A BC000514.1 213588_x_at RPL14 AA838274 221476_s_at RPL15 AF279903.1 221475_s_at RPL15 NM_002948.1 212537_x_at RPL17 BE733979 212270_x_at RPL17 BG168283 222297_x_at RPL18 AV738806 200869_at RPL18A NM_000980 221775_x_at RPL22 BG152979 221726_at RPL22 BE250348 220960_x_at RPL22 NM_000983 214042_s_at RPL22 AW071997 208768_x_at RPL22 D17652.1 200888_s_at RPL23 NM_000978 216177_at RPL29 AW582267 213969_x_at RPL29 BF683426 200823_x_at RPL29 NM_000992 212039_x_at RPL3 BG339228 211666_x_at RPL3 L22453.1 211073_x_at RPL3 BC006483.1 201217_x_at RPL3 NM_000967 200674_s_at RPL32 NM_000994 213687_s_at RPL35A BE968801 219762_s_at RPL36 NM_015414 201406_at RPL36A NM_021029 214041_x_at RPL37A BE857772 211710_x_at RPL4 BC005817.1 201154_x_at RPL4 NM_000968 200089_s_at RPL4 AI953886 213080_x_at RPL5 BF214492 200937_s_at RPL5 NM_000969 212042_x_at RPL7 BG389744 200717_x_at RPL7 NM_000971 234875_at rpL7a AJ224082 234873_x_at rpL7a AJ224080 217740_x_at RPL7A NM_000972 200936_at RPL8 NM_000973 214167_s_at RPLP0 AA555113 200763_s_at RPLP1 NM_001003 201426_s_at RPLP2 AI922599 200909_s_at RPLP2 NM_001004 205562_at RPP38 NM_006414 211542_x_at RPS10 BC004334.1 208646_at RPS14 AF116710.1 200781_s_at RPS15A NM_001019 213890_x_at RPS16 AI200589 201258_at RPS16 NM_001020 212578_x_at RPS17 BF026595 201665_x_at RPS17 NM_001021 213414_s_at RPS19 BE259729 202649_x_at RPS19 NM_001022 212433_x_at RPS2 AA630314 214003_x_at RPS20 BF184532 200949_x_at RPS20 NM_001023 214097_at RPS21 AW024383 200834_s_at RPS21 NM_001024 200926_at RPS23 NM_001025 200741_s_at RPS27 NM_001030 242214_at RPS27A AU152194 212391_x_at RPS3A AI925635 201257_x_at RPS3A NM_001006 213347_x_at RPS4X AW132023 209134_s_at RPS6 BC000524.1 201254_x_at RPS6 NM_001010 200081_s_at RPS6 BE741754 204635_at RPS6KA5 NM_004755 203777_s_at RPS6KB2 NM_003952 218909_at RPS6KC1 NM_012424 213941_x_at RPS7 AI970731 200858_s_at RPS8 NM_001012 217747_s_at RPS9 NM_001013 214317_x_at RPS9 BE348997 212590_at RRAS2 BG168858 209773_s_at RRM2 BC001886.1 201890_at RRM2 NM_001034.1 222204_s_at RRN3 AL110238.1 203594_at RTCD1 NM_003729 203485_at RTN1 NM_021136 211509_s_at RTN4 AB015639.1 210968_s_at RTN4 AF333336.1 202426_s_at RXRA NM_002957.2 202853_s_at RYK NM_002958 200660_at S100A11 NM_005620 208540_x_at S100A11P NM_021039 217728_at S100A6 NM_014624 217946_s_at SAE1 NM_016402 201748_s_at SAFB NM_002967 235964_x_at SAMHD1 AA603344 235529_x_at SAMHD1 BF437747 220330_s_at SAMSN1 NM_022136 208740_at SAP18 NM_005870.2 201543_s_at SARA1 NM_020150 200802_at SARS NM_006513 213988_s_at SAT BE971383 203455_s_at SAT NM_002970 203408_s_at SATB1 NM_002971 204516_at SCA7 BG390306 212416_at SCAMP1 BF058944 205790_at SCAP1 NM_003726 219304_s_at SCDGF-B NM_025208 220791_x_at SCN11A NM_014139 222986_s_at SCOTIN BC001463.1 221514_at SDCCAG16 BC001149.1 223283_s_at SDCCAG33 AF039698.1 223282_at SDCCAG33 W60810 202228_s_at SDFR1 NM_017455 210131_x_at SDHC D49737.1 202004_x_at SDHC NM_003001 221931_s_at SEC13L AV701173 202084_s_at SEC14L1 NM_003003 233924_s_at SEC15L AK002113.1 201583_s_at SEC23B NM_006363 222824_at SEC61A2 AW237290 219351_at SEDL NM_014563 209751_s_at SEDLP AF291676.1 204563_at SELL NM_000655 206049_at SELP NM_003005 225561_at SELT BF692332 203788_s_at SEMA3C AI962897 46665_at SEMA4C AI949392 223444_at SENP7 AL136599.1 217977_at SEPX1 NM_016332 212190_at SERPINE2 AL541302 40189_at set M93651 213047_x_at SET AI278616 200631_s_at SET NM_003011 203155_at SETDB1 NM_012432 203818_s_at SF3A3 NM_006802 213370_s_at SFMBT BF057298 232392_at SFRS3 BE927772 203380_x_at SFRS5 NM_006925 202774_s_at SFRS8 AI023864 212321_at SGPL1 AF144638.1 221268_s_at SGPP1 NM_030791 202060_at SH2BP1 NM_014633 210101_x_at SH3GLB1 AF257318.1 209091_s_at SH3GLB1 AF263293.1 221519_at SHFM3 AF281859.1 221834_at SIAH1 U70056 209339_at SIAH2 U76248.1 209899_s_at SIAHBP1 AF217197.1 52940_at SIGIRR AA085764 211761_s_at SIP BC005975.1 210691_s_at SIP AF275803.1 201381_x_at SIP AF057356.1 206934_at SIRPB1 NM_006065 202782_s_at SKIP NM_016532 210567_s_at SKP2 BC001441.1 230452_at SLC20A1 AI939400 232167_at SLC2A11 BE675356 222088_s_at SLC2A14, AA778684 202499_s_at SLC2A3 NM_006931 204430_s_at SLC2A5 NM_003039 202433_at SLC35B1 NM_005827 218237_s_at SLC38A1 NM_030674 218682_s_at SLC4A1AP NM_018158 202111_at SLC4A2 NM_003040 241752_at SLC8A1 AA094434 221423_s_at SMAP-5 NM_030799 203874_s_at SMARCA1 NM_003069 217707_x_at SMARCA2 AI535683 206542_s_at SMARCA2 AV725365 202983_at SMARCA3 AI760760 213720_s_at SMARCA4 AI831675 211989_at SMARCE1 NM_003079.1 211988_at SMARCE1 NM_003079.1 224755_at SMBP BE621524 213879_at SMT3H2 AI971724 208738_x_at SMT3H2 AK024823.1 230820_at SMURF2 BF111169 44673_at SN N53555 209130_at SNAP23 BC003686.1 211546_x_at SNCA L36674.1 207827_x_at SNCA L36675.1 204466_s_at SNCA BG260394 215722_s_at SNRPA1 AJ130971.1 201342_at SNRPC NM_003093 203316_s_at SNRPE NM_003094 201522_x_at SNRPN NM_003097 228370_at SNURF BF114870 206042_x_at SNURF NM_022804 202359_s_at SNX19 NM_014758 223027_at SNX9 BF972871 208127_s_at SOCS5 NM_014011 201563_at SORD L29008.1 203509_at SORL1 NM_003105 212807_s_at SORT1 BE742268 212468_at SPAG9 AB011088.1 205312_at SPI1 NM_003120 222431_at SPIN AL136719.1 202524_s_at SPOCK2 NM_014767 209436_at SPON1 AB018305.1 218638_s_at SPON2 NM_012445 226353_at SPPL2A AI674647 224640_at SPPL3 AL514199 217995_at SQRDL NM_021199 224130_s_at SRA1 AF293026.1 201516_at SRM NM_003132 203182_s_at SRPK2 NM_003138 218283_at SS18L2 NM_016305 201139_s_at SSB NM_003142 202591_s_at SSBP1 NM_003143 200652_at SSR2 NM_003145 222411_s_at SSR3 AW087870 200957_s_at SSRP1 NM_003146 208667_s_at ST13 U17714.1 207040_s_at ST13 NM_003932 225455_at STAF42 AI760812 201837_s_at STAF65(gamma) AF197954.1 203544_s_at STAM NM_003473 226390_at STARD4 AA628398 225636_at STAT2 H98105 208992_s_at STAT3 BC000627.1 206118_at STAT4 NM_003151 213037_x_at STAU AJ132258.1 207320_x_at STAU NM_004602 225250_at STIM2 AB040915.1 202693_s_at STK17A NM_004760.1 222557_at STMN3 AL353715 217903_at STRN4 NM_013403 210190_at STX11 AF071504.1 209367_at STXBP2 AB002559.1 203310_at STXBP3 NM_007269 228853_at STYX AI652546 202130_at SUDD AW006290 203615_x_at SULT1A1 NM_001055 211385_x_at SULT1A2 U28169.1 207122_x_at SULT1A2 NM_001054 210580_x_at SULT1A3 L25275.1 201484_at SUPT4H1 NM_003168 237333_at SYNCOILIN T90771 201260_s_at SYPL NM_006754 206761_at TACTILE NM_005816 213090_s_at TAF4 AI744029 201463_s_at TALDO1 NM_006755 230052_s_at TA-NFKBH AA004799 208829_at TAPBP AF029750.1 213786_at TAX1BP1 AI935415 200977_s_at TAX1BP1 AF090891.1 203387_s_at TBC1D4 NM_014832 203386_at TBC1D4 AI650848 218520_at TBK1 NM_013254 216241_s_at TCEA1 X57198.1 204045_at TCEAL1 NM_004780 215511_at TCF20 U19345.1 212931_at TCF20 AB006630.1 222146_s_at TCF4 AK026674.1 203753_at TCF4 NM_003199 202261_at TCFL1 NM_005997 217909_s_at TCFL4 BF056105 204043_at TCN2 NM_000355 222010_at TCP1 BF224073 203303_at TCTE1L NM_006520 201999_s_at TCTEL1 NM_006519 208089_s_at TDRD3 NM_030794 201737_s_at TEB4 NM_005885 200627_at TEBP BC003005.1 219025_at TEM1 NM_020404 217853_at TEM6 NM_022748 219700_at TEM7 NM_020405 214081_at TEM7 AF070526.1 203449_s_at TERF1 NM_017489 227637_at TFCP2 AV712694 209338_at TFCP2 U03494.1 207627_s_at TFCP2 NM_005653 242538_at TFDP1 AW007021 212330_at TFDP1 R60866 226157_at TFDP2 AI569747 212457_at TFE3 AL161985.1 221866_at TFEB AL035588 217839_at TFG NM_006070 208691_at TFRC BC001188.1 207332_s_at TFRC NM_003234 203085_s_at TGFB1 BC000125.1 208944_at TGFBR2 D50683.1 222122_s_at THOC2 BG403671 218491_s_at THY28 NM_014174 228259_s_at TIGA1 AW590155 218188_s_at TIMM13 NM_012458 203342_at TIMM17B NM_005834 201666_at TIMP1 NM_003254 203167_at TIMP2 NM_003255 206472_s_at TLE3 NM_005078 203254_s_at TLN1 NM_006289 220146_at TLR7 NM_016562 209263_x_at TM4SF7 BC000389.1 201078_at TM9SF2 NM_004800 208184_s_at TMEM1 NM_003274 212352_s_at TMP21 BE780075 223482_at TMPIT AF327923.1 203432_at TMPO AW272611 206026_s_at TNFAIP6 NM_007115 206025_s_at TNFAIP6 AW188198 223502_s_at TNFSF13B AF134715.1 207196_s_at TNIP1 NM_006058 228369_at TNRC5 AI262560 222243_s_at TOB2 AB051450.1 217930_s_at TOLLIP NM_019009 201812_s_at TOM7 NM_019059 212773_s_at TOMM20- BG165094 PENDING 202264_s_at TOMM40 NM_006114 201292_at TOP2A NM_001067.1 203375_s_at TPP2 NM_003291 216520_s_at TPT1 AF072098 211943_x_at TPT1 AL565449 205875_s_at TREX1 NM_016381 218425_at TRIAD3 BC000787.1 210705_s_at TRIM5 AF220028.1 221897_at TRIM52 AA205660 230165_at TRIPIN N31731 234351_x_at TRPS1 AK000948.1 226339_at TRUB1 AW500239 201758_at TSG101 NM_006292 201513_at TSN NM_004622.1 203983_at TSNAX NM_005999 221493_at TSPYL AL136629.1 204772_s_at TTF1 NM_007344 212705_x_at TTS-2.2 BF570210 209251_x_at TUBA6 BC004949.1 209191_at TUBB-5 BC002654.1 231853_at TUBD1 AK022771.1 201714_at TUBG1 NM_001070 214855_s_at TULIP1 AL050050.1 206828_at TXK NM_003328 201177_s_at UBA2 NM_005499 221490_at UBAP1 AL136733.1 217144_at UBBP1 X04801 200964_at UBE1 NM_003334 203281_s_at UBE1L NM_003335 201898_s_at UBE2A AI126625 201345_s_at UBE2D2 NM_003339 201344_at UBE2D2 NM_003339.1 201343_at UBE2D2 NM_003339.1 229355_at UBE2D3 AU150386 209096_at UBE2V2 U62136.2 225982_at UBTF BG341575 202692_s_at UBTF NM_014233 220083_x_at UCHL5 NM_016017 209712_at UGTREL7 N80922 209711_at UGTREL7 N80922 203790_s_at UK114 N54448 222448_s_at UMP-CMPK AF112216.1 217870_s_at UMP-CMPK NM_016308 212144_at UNC84B; SUN2; AL021707 KIAA0668 220998_s_at UNC93B1 NM_030930 203234_at UP NM_003364 209066_x_at UQCRB M26700.1 205849_s_at UQCRB NM_006294 201903_at UQCRC1 NM_003365 200883_at UQCRC2 NM_003366 208598_s_at UREB1 NM_005703 208971_at UROD M14016.1 213327_s_at USP12 AI820101 210681_s_at USP15 AF153604.1 219211_at USP18 NM_017414 214674_at USP19 AW451502 223167_s_at USP25 AF170562.1 229501_s_at USP8 AI393759 205139_s_at UST NM_005715 203241_at UVRAG NM_003369 225583_at UXS1 AL573637 218495_at UXT NM_004182 211749_s_at VAMP3 BC005941.1 218522_s_at VCY2IP1 NM_018174 204255_s_at VDR NM_000376.1 223302_s_at VIK BC004288.1 205844_at VNN1 NM_004666 212090_at VPS28 AL571424 221593_s_at VRP BC001663.1 222734_at WARS2 BF515963 209117_at WBP2 U79458.1 238823_at WBP3 AA481044 227844_at WBP3 AI089932 206621_s_at WBSCR1 NM_022170 224076_s_at WHSC1L1 AF255649.1 219628_at WIG1 NM_022470 205926_at WSX1 NM_004843 221786_at XAP135 AF055030.1 209375_at XPC D21089.1 212160_at XPOT AI984005 201922_at YR-29 NM_014886 210996_s_at YWHAE U43430.1 210317_s_at YWHAE U28936.1 214032_at ZAP70 AI817942 208087_s_at ZBP1 NM_030776 222731_at ZDHHC2 AI814257 222730_s_at ZDHHC2 AI814257 224858_at ZDHHC5 AB051535.1 202978_s_at ZF NM_021212.1 201531_at ZFP36 NM_003407 211962_s_at ZFP36L1 X79067.1 226111_s_at ZFP385 BF525395 214678_x_at ZFX R51161 212538_at zizimin1 AL576253 202939_at ZMPSTE24 NM_005857 225916_at ZNF131 AA789302 221842_s_at ZNF131 BE972394 244743_x_at ZNF138 AA114243 219854_at ZNF14 NM_021030 209565_at ZNF183 BC000832.1 204327_s_at ZNF202 N91520 244024_at ZNF21 T67481 210275_s_at ZNF216 AF062347.1 218005_at ZNF22 AA744771 219603_s_at ZNF226 NM_015919 215948_x_at ZNF237 AI522311 206744_s_at ZNF237 NM_014242 206900_x_at ZNF253 NM_021047 203707_at ZNF263 NM_005741 211009_s_at ZNF271 AF159567.1 218645_at ZNF277 NM_021994 209431_s_at ZNF278 AF254083.1 218490_s_at ZNF302 NM_018443 211678_s_at ZNF313 AF090934.1 209538_at ZNF32 U69645.1 78330_at ZNF335 AA845577 235300_x_at ZNF363 AW236209 215359_x_at ZNF44 AI758888 222028_at ZNF45 AI967981 228988_at ZNF6 AU157017 205089_at ZNF7 NM_003416 227670_at ZNF75A N74222 221645_s_at ZNF83 M27877.1 206158_s_at ZNF9 NM_003418 206059_at ZNF91 NM_003430 226255_at ZNF-kaiso BE302089 226759_at ZNFN1A4 BE793250 244534_at ZRF1 AI695743 215706_x_at ZYX BC002323.1 200808_s_at ZYX NM_003461 230703_at AA001543 241365_at AA002140 227867_at AA005361 226413_at AA044705 228590_at AA045257 235309_at AA126311 227087_at AA126419 217713_x_at AA126763 236742_at AA132172 228617_at AA142842 225276_at AA143579 228987_at AA156238 225886_at AA156797 226085_at AA181060 243154_at AA215381 238534_at AA262583 236583_at AA286867 227937_at AA307731 242943_at AA352113 204552_at AA355179 244798_at AA398139 235427_at AA418074 240344_x_at AA424065 235046_at AA456099 229305_at AA460299 239780_at AA468422 227388_at AA479016 230350_at AA503360 228049_x_at AA523172 225447_at AA613031 237006_at AA703523 239988_at AA708470 243601_at AA744124 244660_at AA746320 229483_at AA760738 231455_at AA768888 239287_at AA769410 242035_at AA805681 242760_x_at AA808203 235885_at AA810452 238649_at AA815089 227547_at AA824321 242104_at AA826288 229429_x_at AA863228 241692_at AA868729 213750_at AA928506 213034_at AB023216.1 225056_at AB037810.1 234921_at AC007228 213241_at AF035307.1 210829_s_at AF077048.1 210524_x_at AF078844.1 208875_s_at AF092132.1 221681_s_at AF094508.1 216576_x_at AF103529.1 223162_s_at AF116707.1 210501_x_at AF119846.1 223797_at AF130079.1 224709_s_at AF131831.1 211456_x_at AF333388.1 202663_at AI005043 226924_at AI016355 224783_at AI024869 235695_at AI051236 244313_at AI052659 229450_at AI075407 226692_at AI092931 227001_at AI096706 226448_at AI130705 228416_at AI149508 226275_at AI188653 244548_at AI189587 230739_at AI192379 43511_s_at AI201594 226939_at AI202327 227181_at AI203021 230580_at AI222805 226201_at AI224128 236280_at AI225238 240336_at AI242749 229220_x_at AI249173 212099_at AI263909 227639_at AI275605 241837_at AI289774 240015_at AI299467 240830_at AI300126 228585_at AI301948 241962_at AI332476 242865_at AI332638 227562_at AI335267 230376_at AI339915 227140_at AI343467 200962_at AI348010 225716_at AI357639 240118_at AI401105 228822_s_at AI435036 238026_at AI458020 231929_at AI458439 242403_at AI459177 238722_x_at AI460037 239278_at AI471969 64418_at AI472320 238788_at AI475803 228628_at AI478268 228549_at AI491983 228662_at AI492369 231124_x_at AI524095 232375_at AI539443 239277_at AI559696 244811_at AI561173 231225_at AI568622 227100_at AI569766 226527_at AI569785 244219_at AI613089 236285_at AI631846 239300_at AI632214 238155_at AI638235 235536_at AI640483 228607_at AI651594 241299_at AI651969 211984_at AI653730 229410_at AI659219 239401_at AI668672 222279_at AI669379 226550_at AI672159 229083_at AI672356 229264_at AI675152 228959_at AI676241 217679_x_at AI683552 229544_at AI690169 229844_at AI699465 227696_at AI701408 225897_at AI709406 227807_at AI738416 226951_at AI741415 227981_at AI741458 226885_at AI743880 228039_at AI765169 235457_at AI769569 235956_at AI797063 227449_at AI799018 213461_at AI800983 228604_at AI805069 228291_s_at AI806322 239467_at AI806747 227350_at AI807356 235456_at AI810266 229097_at AI813331 228974_at AI816281 230386_at AI819394 217704_x_at AI820796 242390_at AI821925 240413_at AI827431 228174_at AI832363 222036_s_at AI859865 230479_at AI872374 230748_at AI873273 235258_at AI873425 228495_at AI880633 226392_at AI888503 244189_at AI888657 237262_at AI912190 228109_at AI912976 238043_at AI913123 235680_at AI914925 222000_at AI915947 242471_at AI916641 229629_at AI923633 242020_s_at AI925506 225396_at AI928212 225310_at AI928344 235385_at AI935334 240806_at AI939308 235479_at AI948598 229101_at AI963142 235199_at AI969697 212250_at AI972475 241916_at AI984040 228685_at AI990349 227877_at annexin II receptor AI991103 231840_x_at AK000803.1 232004_at AK001846.1 233779_x_at AK022046.1 233605_x_at AK022050.1 233587_s_at AK022852.1 233068_at AK023264.1 232520_s_at AK023585.1 225635_s_at AK023696.1 232787_at AK023724.1 215375_x_at AK023938.1 224664_at AK023981.1 217052_x_at AK024108.1 224580_at AK024263.1 224579_at AK024263.1 216751_at AK024879.1 216437_at AK024949.1 224871_at AK025464.1 232161_x_at AK025546.1 226274_at AK025562.1 221648_s_at AK025651.1 224604_at AK025703.1 224718_at AK025731.1 224711_at AK025731.1 234192_s_at AK026487.1 212051_at AK026913.1 216640_s_at AK026926.1 212528_at AL023553 217340_at AL024509 217322_x_at AL024509 217092_x_at AL031589 216336_x_at AL031602 209733_at AL034399 243495_s_at AL036450 201648_at AL039831 225899_x_at AL040396 225553_at AL042817 212400_at AL043266 221748_s_at AL046979 216348_at AL049693 214857_at AL050035.1 214949_at AL050136.1 213929_at AL050204.1 216559_x_at AL050348 217446_x_at AL080160.1 214902_x_at AL080232.1 215766_at AL096729.1 216570_x_at AL096829 37590_g_at AL109698 226269_at AL110252.1 232034_at AL117607.1 216505_x_at AL118502 226664_at AL121747 222229_x_at AL121871 234807_x_at AL121916 216342_x_at AL121916 216565_x_at AL121994 228007_at AL133101.1 225834_at AL135396 210038_at AL137145 217019_at AL137162 226959_at AL137430.1 233732_at AL137445.1 224763_at AL137450.1 233224_at AL137645.1 228069_at AL138828 212828_at AL157424.1 216547_at AL353681 215063_x_at AL390149.1 216497_at AL390738 227567_at AL524467 225409_at AL529672 228361_at AL561296 226532_at AL563613 226878_at AL581873 225893_at AL589593 228548_at AU126086 227649_s_at AU144000 233019_at AU145061 222164_at AU145411 244389_at AU145538 215617_at AU145711 243819_at AU146329 225732_at AU146850 232909_s_at AU146870 232614_at AU146963 233425_at AU147903 227929_at AU151342 227979_at AU152162 226217_at AU152456 222833_at AU154202 233011_at AU155094 226350_at AU155565 226641_at AU157224 233433_at AU158871 232537_x_at AU159474 225816_at AV646599 241812_at AV648669 212920_at AV682285 231234_at AV699565 243158_at AV700081 227754_at AV700815 222303_at AV700891 229725_at AV705292 228477_at AV707196 213251_at AV712064 235421_at AV713062 228381_at AV716964 204651_at AW003022 227129_x_at AW006934 230314_at AW014557 231644_at AW016812 227199_at AW027812 227722_at AW043594 226402_at AW055161 235725_at AW055351 240038_at AW057518 229865_at AW058617 229907_at AW058634 236243_at AW070776 228846_at AW071793 241801_at AW084937 243764_at AW085312 227198_at AW085505 243934_at AW139261 229373_at AW139719 223501_at AW151360 239896_at AW190479 232001_at AW193600 244312_at AW195572 238156_at AW205632 236172_at AW206817 230085_at AW263542 223358_s_at AW269834 227630_at AW274445 228108_at AW274846 226773_at AW290940 235508_at AW291023 236198_at AW292872 227884_at AW296067 237143_at AW296162 228841_at AW299250 231688_at AW337833 228680_at AW340096 242558_at AW362945 244358_at AW372457 239379_at AW449624 243095_at AW451624 237753_at AW504569 239582_at AW514654 217549_at AW574933 225522_at AW628987 235222_x_at AW675725 230003_at AW779917 235361_at AW842975 239331_at AW954199 235592_at AW960145 215275_at AW963138 222315_at AW972855 236155_at AW974609 238883_at AW975051 217286_s_at BC001805.1 210679_x_at BC002629.1 224482_s_at BC006240.1 229384_at BE044193 244443_at BE247450 227984_at BE464483 239231_at BE464819 227590_at BE501980 235124_at BE502930 214751_at BE541042 234975_at BE544748 241845_at BE550501 228380_at BE551193 224806_at BE563152 224818_at BE622952 238761_at BE645241 239979_at BE645480 230178_s_at BE672676 230248_x_at BE673759 228005_at BE677308 225478_at BE783723 241027_at BE858373 229874_x_at BE865517 235292_at BE875232 225584_at BE880820 225123_at BE883841 224891_at BE888885 228710_at BE905157 241893_at BE927766 224688_at BE962299 211927_x_at BE963164 228571_at BE963438 212472_at BE965029 225750_at BE966748 227665_at BE968576 221963_x_at BE999967 213145_at BF001666 228324_at BF031819 242878_at BF061275 244026_at BF063657 226116_at BF064224 235847_at BF111312 235459_at BF114745 235882_at BF115777 225549_at BF129093 226712_at BF206389 225112_at BF245400 225274_at BF247054 224841_x_at BF316352 224983_at BF339821 244492_at BF357738 213567_at BF431965 227077_at BF432238 225240_s_at BF435123 227964_at BF435621 240572_s_at BF436632 225892_at BF438417 238952_x_at BF439163 242013_at BF445012 227446_s_at BF445127 230224_at BF446577 236001_at BF446940 226352_at BF447037 227451_s_at BF507383 227184_at BF508702 228393_s_at BF508739 228392_at BF508739 225856_at BF512028 227991_x_at BF516567 243261_at BF530486 229893_at BF589413 241859_at BF593050 230779_at BF594371 231927_at BF671883 225967_s_at BF683512 238520_at BF724270 238513_at BF905445 238311_at BF940192 225036_at BF969806 215082_at BF973387 238768_at BF976290 211942_x_at BF979419 213851_at BG031677 215088_s_at BG110532 229814_at BG149337 225116_at BG166310 226635_at BG170478 224606_at BG250721 225845_at BG253884 212995_x_at BG255188 221507_at BG258639 224916_at BG286973 235028_at BG288330 224741_x_at BG329175 213166_x_at BG332462 225155_at BG339050 224569_s_at BG388615 224754_at BG431266 225494_at BG478726 227616_at BG481877 232744_x_at BG485129 226936_at BG492359 223455_at BG493862 225492_at BG500396 227636_at BG500677 239108_at H16791 217506_at H49382 211628_x_at J04755.1 234884_x_at L21961.1 217466_x_at L48784 214058_at M19720 210592_s_at M55580.1 212239_at M61906.1 212486_s_at N20923 226272_at N25986 238929_at N30132 229348_at N30416 227221_at N36085 229200_at N40199 235694_at N49233 226577_at N49844 226179_at N63920 235424_at N66727 49111_at N80935 229905_at N92500 228891_at N93399 201417_at NM_003107.1 201416_at NM_003107.1 208760_at NM_003345.1 217833_at NM_006372.1 221419_s_at NM_013307 219731_at NM_024343 220712_at NM_024984 239876_at R37337 231109_at R44974 204831_at R59697 243973_at R67076 226883_at T89044 239725_at T90703 217202_s_at U08626 216383_at U52111 215057_at U66046.1 215283_at U79248.1 212607_at U79271.1 214848_at U79277.1 212672_at U82828 208676_s_at U87954.1 215009_s_at U92014.1 238431_at W68845 225095_at W81119 212605_s_at W85912 239555_at W87626 202969_at Y09216.1 217347_at Z82202 217266_at Z97353 215963_x_at Z98200

The expression of a gene in Table 2A could be at least 75% less, at least 80% less, at least 90% less or at least 95% less in a SLE subject as compared to one or more controls. The expression of a gene in Table 2B could be at least four-fold, at least five-fold, or at least ten-fold greater in a SLE subject as compared to one or more controls. Also, in preferred embodiments, the method includes determining the relative levels of expression of at least 400, 450, 500, 550, 600, 650, 700, 750, 800, 850, 850, 900, 950, or at least 1000 genes in Table 2A and/or 2B as compared to one or more controls. In one embodiment, the determining step measures the level of mRNA expressed.

As an alternative to comparing the level of expression of genes listed in Table 2A, 2B and/or 2C in a mammalian subject with the expression levels in one or more controls, the level of expression in the subject can be compared to a plurality of reference profiles associated with the presence or absence of SLE, and optionally, the severity of SLE. Accordingly, the invention provides a method for diagnosing systemic lupus erythematosus (SLE), by providing a plurality of reference expression profiles, each representing the level of expression of at least 375 genes listed in Table 2A and/or Table 2B and associated with the presence or absence of SLE, and optionally with the severity of SLE; providing a subject expression profile generated from one or more cells or other sample from a mammalian subject and representing the level of expression of at least 10 genes listed in Table 2A and/or Table 2B; and selecting the reference profile most similar to the subject expression profile, to thereby diagnose the presence or absence of SLE in the subject, and optionally the severity of SLE in the subject.

The reference expression profile represents the level of expression of at least 400, at least 450, at least 500, at least 550, at least 600, at least 650, at least 700, at least 750, at least 800, at least 850, at least 900, at least 950, or at least 1000 genes listed in Table 2A and/or Table 2B. Preferably the subject expression profiles represents the level of expression of at least 20, at least 30, at least 40, at least 50, at least 75, at least 100, at least 150, at least 200, at least 250, at least 300, at least 350, at least 375, at least 400, at least 450, at least 500, at least 550, at least 600, at least 650, at least 700, at least 750, at least 800, at least 850, at least 900, at least 950, or at least 1000 genes listed in Table 2A and/or Table 2B.

The inventors have identified 45 genes that discriminate SLE patients from patients with influenza and healthy patients. Table 3A lists 27 genes which are under-expressed in SLE patients as compared to influenza and healthy patients. Table 3B lists 18 genes which are over-expressed in SLE patients as compared to influenza and healthy patients.

TABLE 3A Table 3A. Genes under-expressed in SLE patients as compared to healthy patients and/or patients infected with influenza. Affymetrix ID Common Genbank ID 227616_at BG481877 229312_s_at GKAP42 BF434321 210031_at CD3Z J04132.1 202479_s_at GS3955 BC002637.1 225628_s_at MLLT6 BE677453 213109_at KIAA0551 N25621 201748_s_at SAFB NM_002967 222122_s_at THOC2 BG403671 237333_at SYNCOILIN T90771 216111_x_at hPMSR3 U38979 221264_s_at AF311304 NM_031214 201416_at NM_003107.1 201417_at NM_003107.1 235014_at LOC147727 BF345728 221214_s_at DKFZP586J1624 NM_015537 226611_s_at p30 AA722878 205005_s_at NMT2 AW293531 215440_s_at FLJ10097 AL523320 214081_at TEM7 AF070526.1 214857_at AL050035.1 200767_s_at C9orf10 NM_014612 212107_s_at DDX9 BE910323 201917_s_at FLJ10618 AI694452 227712_at DJ122O8.2 AV682940 225184_at ELD/OSA1 AK000921.1 227722_at AW043594 205839_s_at BZRAP1 NM_004758

TABLE 3B Table 3B. Genes over-expressed in SLE patients as compared to healthy patients and/or patients infected with influenza. Affymetrix ID Common Genbank ID 202568_s_at MARK3 AI745639 210681_s_at USP15 AF153604.1 230110_at MCOLN2 AV713773 218048_at BUP NM_012071 208683_at CAPN2 M23254.1 209593_s_at TOR1B AF317129.1 217995_at SQRDL NM_021199 201576_s_at GLB1 NM_000404 200677_at PTTG1IP NM_004339 211509_s_at RTN4 AB015639.1 217763_s_at RAB31 NM_006868 201012_at ANXA1 NM_000700 212268_at SERPINB1 NM_030666.1 204714_s_at F5 NM_000130 227769_at GPR27 AI703476 225633_at LOC147991 BF057717 204780_s_at TNFRSF6 AA164751 219253_at FAM11B NM_024121

In one aspect, the human patient suffering from SLE expresses at least 2, 3, 4, 5, 10, 15, 20, 25, 30, or at least 40 genes, preferably 45 genes in Table 3A and/or Table 3B, wherein the patient expresses genes in Table 3A to an extent at least 50% less than the control, and expresses genes in Table 3B to extent at least two-fold more than the control. The level of expression in SLE patients can be at least 50%, 60%, 70%, 80%, 90% or at least 95% less than the level of expression of a gene in Table 3A as compared to the control. The level of expression in SLE patients can be at least two-fold, three-fold, four-fold or at least five-fold more than the control. In a yet further aspect, the one or more gene is expressed in a peripheral blood mononuclear cell. In one embodiment, the determining step measures the level of mRNA expressed.

In another embodiment, the invention provides a method for diagnosing systemic lupus erythematosus (SLE), by providing a plurality of reference expression profiles, each associated with the presence or absence of SLE, and optionally with the severity of SLE; providing a subject expression profile generated from one or more cells or other sample from a mammalian subject; and selecting the reference expression profile most similar to the subject expression profile, to thereby diagnose the presence or absence of SLE in the subject, and optionally the severity of SLE in the subject; wherein, the subject expression profile and the reference profiles represent the level of expression of at least 1 gene listed in Table 3A and/or Table 3B.

The reference expression profile contains the levels of expression of at least 2, 3, 4, 5, 6, 7, 8, 9, 10, 15, 20, 25, 30, 35, 40, or at least 45 genes listed in Table 3A and/or Table 3B. The subject expression profile may include the levels of expression of at least 2, 3, 4, 5, 6, 7, 8, 9, 10, 15, 20, 25, 30, 35, 40, or at least 45 genes listed in Table 3A and/or Table 3B.

The 3004 transcripts shown in Tables 2A and 2B (supra) were identified that are differentially expressed in pediatric SLE as compared to healthy controls. A p<0.0001 with parametric or non-parametric t-test Analysis of a greater number of probe sets in the analysis confirmed expression signatures 255 of the 374 genes was identified by the present inventors (Bennett et al. (2003) J Exp Med 197:711-723). 263 of the 3004 differentially regulated transcripts are type I IFN-regulated. Transcripts were considered to be IFN-regulated if they were at least 2-fold up or down in two healthy donor PBMCs incubated with recombinant IFN-α for 6 hours compared to both the median of the healthy controls and to healthy PBMCs incubated with autologous serum. According to these criteria, 2,741 of the 3004 transcripts are not regulated by IFN. Because of the possibility that some of these 2,741 transcripts could be up- or down-regulated by type I interferon at different time-points, these probes were used to search the Gene Ontology (GO) database. No further type I interferon-regulated transcripts were identified. Table 3C shows 50 probe sets with the most significant p-values from a parametric analysis with Welch correction. It was found that, 37/50 of transcripts are type I IFN-regulated, 13 are not regulated by IFN.

TABLE 3C Table 3C. A 50 probe set with the most significant p-values from a parametric analysis with Welch correction. Affymetrix ID Common name Genbank ID 214453_s_at IFI44 NM_006417.1 218400_at OAS3 NM_006187 202086_at MX1 NM_002462 242625_at cig5 AW189843 219863_at CEB1 NM_016323 204994_at MX2 NM_002463 222154_s_at DKFZP564A2416 AK002064.1 213294_at IMAGE: 4074138 AV755522 229450_at cig41 AI075407 44673_at SN N53555 213797_at cig5 AI337069 204747_at IFIT4 NM_001549 227609_at EPSTI1 AA633203 202145_at LY6E NM_002346 202411_at IFI27 NM_005532 208436_s_at IRF7 NM_004030 204439_at C1orf29 NM_006820 226702_at LOC129607 AI742057 205483_s_at G1P2 NM_005101 202869_at OAS1 NM_016816 228607_at IMAGE: 2304958 AI651594 204972_at OAS2 NM_016817 227807_at FLJ35310 AI738416 214042_s_at RPL22 AW071997 211938_at PRO1843 BF247371 218660_at DYSF NM_003494 219352_at FLJ20637 NM_017912 210797_s_at OASL AF063612.1 242234_at HSXIAPAF1 AI859280 226757_at IFIT2 AA131041 221726_at RPL22 BE250348 236285_at ESTs AI631846 206111_at RNASE2 NM_002934 231798_at NOG AL575177 202446_s_at PLSCR1 AI825926 200705_s_at EEF1B2 NM_001959 216177_at RPL29 AW582267 229305_at IMAGE: 4303245 AA460299 205660_at OASL NM_003733 201786_s_at ADAR NM_001111 207157_s_at GNG5 NM_005274 228617_at FLJ34480 AA142842 203236_s_at LGALS9 NM_009587 217340_at RP3-522P13 AL024509 225344_at ERAP140 AL035689 228152_s_at FLJ31033 AK023743.1 208886_at H1F0 BC000145.1 201154_x_at RPL4 NM_000968 233880_at KIAA1554 AL161961.1 223220_s_at BAL AF307338.1

In another aspect, the inventors have identified 6 genes listed in Table 4, in which expression is correlated directly with the SLEDAI index, which indicates the severity of SLE. The level of expression of these genes indicates the presence and severity of SLE, and can be used to monitor disease progression or remission, and the efficacy of therapy.

TABLE 4 SLE-associated human genes highly correlated with SLEDAI index Accession No. Database Gene NM_019096 GenBank GTPBP2 AK002064.1 GenBank DNAPTP6 AF237762 GenBank GPR84 NM_004776.1 GenBank B4GALT5 AB045118.1 GenBank FRAT2 L13386.1 GenBank PAFAH1B1

Thus, in one embodiment, the invention provides a method of diagnosing system lupus erythematosus (SLE), by determining whether a mammal contains one or more cells that express at least one gene selected from Table 4 to an extent at least two-fold greater than one or more controls; and diagnosing the mammal as having SLE if the mammal contains the one or more cells, or as not having SLE if the cell is not identified.

In another embodiment, the invention provides a method of determining the severity of SLE, by determining the extent to which one or more cells from a mammal suffering from SLE over-express one or more genes selected from Table 4 as compared to one or more controls; and correlating the severity of the disease with the extent of over-expression. The level of expression of 2, 3, 4 or 5 genes in Table 4 is determined. Rather than comparing the expression of the genes in Table 4 in SLE patients and controls, the levels in SLE patients can be compared to a reference profile which correlates level of expression with an index of disease severity, such as, but not limited to SLEDAI. Thus, the invention provides a method for diagnosing systemic lupus erythematosus (SLE) and/or determining the severity thereof by providing a plurality of reference expression profiles, each associated with the presence or absence of SLE, and optionally with the severity of SLE; providing a subject expression profile generated from one or more cells or other sample from a mammalian subject; and selecting the reference expression profile most similar to the subject expression profile, to thereby diagnose the presence or absence of SLE in the subject, and optionally the severity of SLE in the subject; wherein, the subject expression profile and the reference expression profiles represent the level of expression of at least 1 gene listed in Table 4. The reference expression profiles represent the levels of expression of 2, 3, 4 or 5 genes in Table 4, and/or the subject expression profile represents the levels of expression of 2, 3, 4, or 5 genes in Table 4.

The level of expression of genes in Table 4 can also be used to monitor disease progression or remission, or the efficacy of a therapeutic treatment. Thus, the invention provides a method for monitoring disease state in an adult subject having systemic lupus erythematosus, by comparing the level of expression of at least one gene selected from Table 4 in one or more cells or sample isolated from the patient at a first time point to the level of expression in one or more cells or sample isolated at a second time point; and correlating a decrease in the degree of expression of genes in Table 4 at the second time point as compared to the first time point with an improvement in the patient's disease state, and/or correlating an increase in the degree of expression of genes in Table 4 at the second time point as compared to the first time point with an increase in the severity of the disease state.

In the above methods, preferably the relative levels of expression of at least two, three, four or five of the genes listed in Table 4 is determined. By relative level is meant that the extent of expression in one or more cells of an SLE patient or possible SLE patient is compared to the level of expression in one or more controls, or is compared to a reference profile.

This invention also includes a diagnostic array that includes at least 10 polynucleotides that hybridize under stringent conditions to a different polynucleotide of Table 1A and/or Table 1B; at least 375 polynucleotides that hybridize under stringent conditions to a different nucleic acid molecule identified in Table 2A and/or Table 2B; at least 10 polynucleotides that hybridize under stringent conditions to a different polynucleotide of Table 3A and/or Table 3B; and/or at least 2 polynucleotides that hybridize under stringent conditions to a different polynucleotide of Table 4; wherein the nucleic acids may include at least 40% of the polynucleotides in the composition. Generally, the nucleic acids include at least 50%, at least 60%, at least 70%, at least 80%, at least 90% or 100% of the polynucleotides in the array.

In another aspect, the invention provides a method for detecting a systemic lupus erythematosus (SLE) profile in a suitable sample by contacting the suitable sample with the above diagnostic composition under conditions that are favorable to the recognition of one or more nucleic acids identified in Table 1A, 1B, 2A, 2B, 2C, 3A, 3B or 4, by the polynucleotides and detecting the location and identity of nucleic acids recognized by the polynucleotides, thereby detecting the presence or absence of an SLE profile.

The method may further include correlating the profile with a diagnostic and/or control profile. For example, the control diagnostic or control profile can be selected from the group of indications consisting of a normal healthy control, an influenza infection, SLE subjects with renal involvement, and SLE subjects without renal involvement. In one embodiment, the control is from the profile determined for a subject prior to therapeutic intervention. Examples of therapeutic interventions include, but are not limited to a candidate therapeutic agent, interferon alpha (IFN-α) inhibitors, corticosteroids, nonsteroidal immune suppressants, antimalarials, nonsteroidal anti-inflammatory drugs and the like. In a further embodiment, the diagnostic nucleic acids are attached to a substrate, e.g., glass, silicon or a device, e.g., a charge-coupled device. In another embodiment, the invention provides a kit including one or more arrays, and instructions for determining the identity of each polynucleotide and its location in the array.

In one embodiment, the agents are polynucleotide probes or amplification primers (e.g., polymerase chain reaction (PCR) primers) and/or detectable markers. In one aspect, the detectable markers are quantitative. Examples of detectable markers include, e.g., a radiolabel, a fluorescent dye molecule or biotin markers. This invention also includes a method of manufacture, or kit with one or more arrays described above and instructions for determining the identity of each nucleic acid and its location in the array. The methods and compositions of the invention are useful to diagnose, prognose and monitor SLE subjects, and to determine whether SLE patients are likely to develop renal involvement. In one embodiment, the control is from the profile determined for a subject prior to therapeutic intervention. Such therapeutic interventions include, but are not limited to a candidate therapeutic agent, interferon alpha (IFN-α) therapy, corticosteroids, nonsteroidal immune suppressants, antimalarials, and nonsteroidal anti-inflamatory drugs.

Further provided by this invention are nucleic acid arrays for use in the methods described herein. The nucleic acid array may include at least 10 nucleic acid molecules, wherein each of the at least 10 nucleic acid molecules has a different nucleic acid sequence, and wherein at least 25 percent of the nucleic acid molecules of the array comprise sequences that specifically hybridize to genes listed in Tables 1A, 1B, 2A, 2B, 2C, 3A, 3B or 4, alone or in combination. The nucleic acid array may include at least 20, at least 30, at least 40, at least 50, at least 60, at least 70, at least 80, at least 90, at least 100, at least 150, at least 200, at least 250, at least 300, at least 350, at least 375, or at least 400 nucleic acid molecules that specifically hybridize to genes listed in the Tables. Generally, at least 50 percent, at least 75% or 100% of the nucleic acid molecules of the array specifically hybridize to genes listed in the Tables.

Diagnostic Methods. As noted above, this invention provides various methods for the diagnosis, prognosis and disease monitoring of a subject. The methods involve determining the level of expression of at least one gene identified in the Table 1A, 1B, 2A, 2B, 2C, 3A, 3B and/or Table 4 in a subject as compared to one or more controls or reference profiles. The level of expression can be measured at the RNA or protein level. Detection can be by any appropriate method, including, e.g., detecting the quantity of mRNA transcribed from the gene or the quantity of nucleic acids derived from the mRNA transcripts. Examples of nucleic acids derived from an mRNA include a cDNA produced from the reverse transcription of the mRNA, an RNA transcribed from the cDNA, a DNA amplified from the cDNA, an RNA transcribed from the amplified cDNA, and the like. In order to detect the level of mRNA expression, the amount of the derived nucleic acid should be proportional to the amount of the mRNA transcript from which it is derived. Detection of the level of gene expression can also include detecting the quantity of the polypeptide or protein encoded by the gene. Methods of detecting polypeptides are known to those of skill in the art. In one embodiment, antibodies specific for polypeptide products of the genes in the Tables herein, or of allelic variants or homologs thereof, are used to quantitate the level of gene expression.

In one embodiment, the level of mRNA expression is detected by hybridization of the mRNA or cDNA by hybridization to a probe. In another embodiment, the probe is immobilized, e.g., on a substrate. These methods may be performed on a sample by sample basis or modified for high throughput analysis. Such methods are known to those of skill in the art. For example, the methods of detecting gene expression are disclosed at the Affymetrix.com website, relevant portions incorporated herein by reference. Additionally, databases with quantitative full or partial transcripts or protein sequences isolated from a cell sample can be searched and analyzed for the presence and amount of transcript or expressed gene product. In one aspect, the database contains at least one of the sequences shown in any one or more of Table 1A, 1B, 2A. 2B, 3A, 3B and Table 4, alone or in combination, and/or at least the sequence of an expression product of the gene.

The level of gene expression in one or more cells, tissues or extracellular samples can be determined Cells, tissue samples and extracellular samples used for this invention encompass body fluid, solid tissue samples, tissue cultures or cells derived there from and the progeny thereof and sections or smears prepared from any of these sources or any other samples that may contain an expression product (e.g., a secreted protein) of a gene listed in the Tables herein, or an allelic variant or homolog thereof. Cells may be obtained from blood, e.g., peripheral blood mononuclear cells (PBMCs), monocytes, dendritic cells, immature neutrophils (IN) mature neutrophils (MN), granulocytes, B cells and T cells. However, any cells obtained from a patient may be used with the present invention. Levels of secreted polypeptides can be measured in order to determine whether a cell differentially expresses a gene. As a non-limiting example, secreted polypeptides can be found in blood, plasma, serum, urine, sputum and other bodily fluids.

In assaying for an alteration in mRNA level, nucleic acid in the samples can be measured in situ or in extracts, according to standard methods in the art. Methods for isolating total mRNA are known to those of skill in the art. See Chapter 3 of Laboratory Techniques in Biochemistry ad Molecular Biology: Hybridization with Nucleic Acid Probes, Theory and Nucleic Acid Preparation, Tijssen, ed. Elsevier, N.Y. (1993); Sambrook et al., Molecular Cloning: A Laboratory Manual (latest edition), Cold Spring Harbor Laboratory; and Current Protocols in Molecular Biology, Ausubel, et al., ed. Greene Publishing and Wiley-Interscience, New York (1987). For instance, mRNA can be isolated using various lytic enzymes or chemical solutions according to the procedures set forth in Sambrook, et al. (1989) supra or extracted by nucleic-acid-binding resins following the accompanying instructions provided by manufacturers. The mRNA expression level of a gene of Table 1A, 1B, 2A, 2B, 2C, 3A, 3B or 4, contained in the sample can be detected by any method, including hybridization (e.g., nucleic acid arrays, Northern blot analysis, etc.) and/or amplification procedures according to methods widely known in the art or based on the methods exemplified herein. In a preferred embodiment, the level of mRNA is detected by hybridization to a nucleic acid array. Nucleic acid arrays are commonly used to simultaneously detect and/or quantify the expression of one or a multitude of genes. Such methods are known to those of skill in the art. See U.S. Pat. Nos. 6,040,138 and 6,391,550, the contents of which are incorporated by reference. For example, the RNA in or from a sample can be detected directly or after amplification. Any suitable method of amplification may be used. In one embodiment, cDNA is reversed transcribed from RNA, and then optionally amplified, for example, by PCR.

Nucleic acid molecules having at least 10 nucleotides and exhibiting sequence complementarity or homology to at least one polynucleotide encoding a peptide identified in Table 1A, 1B, 2A, 2B, 2C, 3A, 3B or 4, may be used as hybridization and amplification probes. It is known in the art that a “perfectly matched” probe is not needed for a specific hybridization or amplification. Minor changes in probe sequence achieved by substitution, deletion or insertion of a small number of bases do not affect the hybridization specificity. In general, as much as 20% base-pair mismatch (when optimally aligned) can be tolerated. A probe useful for detecting mRNA is at least about 80% identical to the homologous region of comparable size contained in the genes or polynucleotides encoding the peptides identified in Table 1A, 1B, 2A, 2B, 2C, 3A, 3B or 4, and to allelic variants and homologs thereof. In one aspect, the probe is 85% identical to the corresponding polynucleotide sequence after alignment of the homologous region or, alternatively, it exhibits 90% identity. These probes can be used in nucleic acid arrays, as amplification primers, in radioassays (e.g., Southern and Northern blot analysis), etc., to detect, prognose, diagnose or monitor various conditions resulting from differential expression of a polynucleotide of interest, e.g., SLE. The total size of fragment, as well as the size of the complementary stretches, will depend on the intended use or application of the particular nucleic acid segment. Smaller fragments derived from the known sequences will generally find use in hybridization embodiments, wherein the length of the complementary region may be varied, such as between about 10 and about 100 nucleotides or even full-length according to the complementary sequences one wishes to detect.

In one aspect, nucleotide probes having complementary sequences over stretches greater than about 10 nucleotides in length are used, so as to increase stability and selectivity of the hybrid and, thereby, improving the specificity of particular hybrid molecules obtained. Alternatively, the user can design nucleic acid molecules having gene-complementary stretches of more than about 25 or alternatively more than about 50 nucleotides in length or even longer where desired. Such fragments may be readily prepared by, for example, directly synthesizing the fragment chemically, by application of nucleic acid reproduction technology, such as the PCR technology with two or more priming oligonucleotides as described in U.S. Pat. No. 4,603,102 (relevant portions incorporated herein by reference) or by introducing selected sequences into recombinant vectors for recombinant production. In one aspect, a probe is about 50 to about 75, nucleotides or, alternatively, about 50 to about 100 nucleotides in length. These probes can be designed from the sequence of full length genes.

In certain embodiments, it will be advantageous to employ nucleic acid sequences as described herein in combination with an appropriate label for detecting hybridization and/or complementary sequences. A wide variety of appropriate labels, markers and/or reporters are known in the art, including fluorescent, radioactive, enzymatic or other ligands, such as avidin/biotin, which are capable of giving a detectable signal. One can employ a fluorescent label or an enzyme tag, such as urease, alkaline phosphatase or peroxidase, instead of radioactive or other environmental undesirable reagents. In the case of enzyme tags, colorimetric indicator substrates are known that can be employed to provide a signal that is visible to the human eye or spectrophotometrically, to identify specific hybridization with complementary nucleic acid-containing samples. In one embodiment of the invention, a detectable label is incorporated into a cDNA copy of an mRNA, and then the labeled cDNA is hybridized to an immobilized probe, e.g., to a probe immobilized on a substrate that is formed as a microarray.

Hybridization reactions can be performed under conditions of different “stringency”. Relevant conditions include temperature, ionic strength, time of incubation, the presence of additional solutes in the reaction mixture such as formamide and the washing procedure. Higher stringency conditions are those conditions, such as higher temperature and lower sodium ion concentration, which require higher minimum complementarity between hybridizing elements for a stable hybridization complex to form. Conditions that increase the stringency of a hybridization reaction are widely known and published in the art. See, for example, Sambrook, et al. (1989) supra.

The nucleotide probes of the present invention can also be used as primers and detection of genes or gene transcripts that are differentially expressed in certain body tissues. Additionally, a primer useful for detecting the aforementioned differentially expressed mRNA is at least about 80% identical to the homologous region of comparable size contained in the previously identified sequences encoding the peptides identified in Table 1A, 1B, 2A, 2B, 2C, 3A, 3B or 4. For the purpose of this invention, “amplification” refers to any method employing a primer-dependent polymerase capable of replicating a target sequence with reasonable fidelity. Amplification may be carried out by natural or recombinant DNA-polymerases such as, but not limited to, T7 DNA polymerase, Klenow fragment of E. coli DNA polymerase and reverse transcriptase.

A known amplification method is PCR, MacPherson et al., PCR: A PRACTICAL APPROACH, (IRL Press at Oxford University Press (1991)). However, PCR conditions used for each application reaction are empirically determined A number of parameters influence the success of a reaction. Among them are annealing temperature and time, extension time, Mg2+ ATP concentration, pH and the relative concentration of primers, templates and deoxyribonucleotides.

After amplification, the resulting DNA fragments can be detected by agarose gel electrophoresis followed by visualization with ethidium bromide staining and ultraviolet illumination. A specific amplification of differentially expressed genes of interest can be verified by demonstrating that the amplified DNA fragment has the predicted size, exhibits the predicated restriction digestion pattern and/or hybridizes to the correct cloned DNA sequence.

The probes also can be attached to a solid support for use in high throughput screening assays using methods known in the art. PCT WO 97/10365 and U.S. Pat. Nos. 5,405,783; 5,412,087 and 5,445,934; for example, disclose the construction of high density oligonucleotide chips which can contain one or more of the sequences disclosed herein. Using the methods disclosed in U.S. Pat. Nos. 5,405,783; 5,412,087 and 5,445,934; the probes of this invention are synthesized on a derivatized glass surface. Photoprotected nucleoside phosphoramidites are coupled to the glass surface, selectively deprotected by photolysis through a photolithographic mask and reacted with a second protected nucleoside phosphoramidite. The coupling/deprotection process is repeated until the desired probe is complete.

The expression level of a gene can also be determined through exposure of a nucleic acid sample to a probe-modified chip. Extracted nucleic acid is labeled, for example, with a fluorescent tag, during an amplification step. Hybridization of the labeled sample is performed at an appropriate stringency level. The degree of probe-nucleic acid hybridization is quantitatively measured using a detection device, such as a confocal microscope. See, U.S. Pat. Nos. 5,578,832 and 5,631,734. The obtained measurement is directly correlated with gene expression level.

The probes and high density oligonucleotide probe arrays also provide an effective way to monitor expression of a gene or protein identified in Table 1A, 1B, 2A, 2B, 2C, 3A, 3B or 4. They are also useful to screen for compositions that up-regulate or down-regulate the expression of one or more of these genes and their expression products. In another embodiment, the methods of this invention are used to monitor expression of at least one gene of Table 1A, 1B, 2A, 2B, 2C, 3A, 3B or 4, or an allelic variant or homolog thereof which specifically hybridizes to the probes of this invention in response to defined stimuli, such as an exposure of a cell or subject to a drug.

In another embodiment, the hybridized nucleic acids are detected using one or more labels attached to the sample nucleic acids. The labels may be incorporated by any of a number of methods known to those of skill in the art. In one embodiment, the label is simultaneously incorporated during the amplification step in the preparation of the sample nucleic acid. Thus, for example, polymerase chain reaction (PCR) with labeled primers or labeled nucleotides will provide a labeled amplification product. In a separate embodiment, transcription amplification, as described above, using a labeled nucleotide (e.g., fluorescein-labeled UTP, GTP, ATP and/or CTP) incorporates a label into the transcribed nucleic acids. Methods for detecting amplification products, such as PCR products are known to those of skill in the art. Alternatively, a label may be added directly to the original nucleic acid sample (e.g., mRNA, polyA, mRNA, cDNA, etc.) or to the amplification product after the amplification is completed. Methods for attaching labels to nucleic acids are known to those of skill in the art and include, for example nick translation or end-labeling (e.g., with a labeled RNA) by kinasing of the nucleic acid and subsequent attachment (ligation) of a nucleic acid linker joining the sample nucleic acid to a label (e.g., a fluorophore).

Detectable labels suitable for use in the present invention include any composition detectable by spectroscopic, photochemical, biochemical, immunochemical, electrical, optical or chemical detection methods. Useful labels in the present invention include biotin for staining with labeled streptavidin conjugate, magnetic beads (e.g., Dynabeads™), fluorescent dyes (e.g., fluorescein, Texas red, rhodamine, green fluorescent protein and the like), radiolabels (e.g., 3H, 125I, 35S, 14C or 32P) enzymes (e.g., horseradish peroxidase, alkaline phosphatase and others commonly used in an ELISA) and colorimetric labels such as colloidal gold or colored glass or plastic (e.g., polystyrene, polypropylene, latex, etc.) beads. Patents teaching the use of such labels include U.S. Pat. Nos. 3,817,837; 3,850,752; 3,939,350; 3,996,345; 4,277,437; 4,275,149; and 4,366,241, relevant portions incorporated herein by reference. Methods of detecting such labels are known to those of skill in the art. Thus, for example, radiolabels may be detected using photographic film or scintillation counters, fluorescent markers may be detected using a photodetector to detect emitted light. Enzymatic labels are typically detected by providing the enzyme with a substrate and detecting the reaction product produced by the action of the enzyme on the substrate and colorimetric labels are detected by simply visualizing the colored label.

As described in more detail in WO 97/10365 (relevant portions incorporated herein by reference), the label may be added to the target (sample) nucleic acid(s) prior to or after the hybridization. These are detectable labels that are directly attached to or incorporated into the target (sample) nucleic acid prior to hybridization. In contrast, “indirect labels” are joined to the hybrid duplex after hybridization. Often, the indirect label is attached to a binding moiety that has been attached to the target nucleic acid prior to the hybridization. Thus, for example, the target nucleic acid may be biotinylated before the hybridization. After hybridization, an avidin-conjugated fluorophore will bind the biotin bearing hybrid duplexes providing a label that is easily detected. For a detailed review of methods of labeling nucleic acids and detecting labeled hybridized nucleic acids; see, Laboratory Techniques In Biochemistry And Molecular Biology, Vol. 24: Hybridization with Nucleic Acid Probes, P. Tijssen, ed. Elsevier, N.Y. (1993). The nucleic acid sample also may be modified prior to hybridization to the high density probe array in order to reduce sample complexity thereby decreasing background signal and improving sensitivity of the measurement using methods known in the art, e.g., the methods disclosed in WO 97/10365.

Results from the chip assay are typically analyzed using a computer software program which are described in the literature (see, for example, EP 0717 113 A2 and WO 95/20681) or commercially available from a vendor such as Affymetrix (Santa Clara, Calif.). See the Affymetrix web site (www.affymetrix.com), which contains detailed protocols, as well as links to the sequences of the probes contained in the HG-U133A and HG-U133B arrays used in the examples. The hybridization data can be read into the program, which calculates the expression level of the targeted gene(s) i.e., the genes identified in Table 1A, 1B, 2A, 2B, 2C, 3A, 3B or 4. This figure is compared against existing data sets of gene expression levels for SLE patients, and healthy individuals, fibromyalgia patients, flu patients, SLE patients known to have later developed renal involvement, and the like. A correlation between the obtained data and that of a set of SLE patients with known outcomes indicates SLE in a subject patient, the likelihood that that patient will develop renal disease and the efficacy of therapeutic intervention.

Alternatively, gene expression profiles can be determined by sequencing mRNA in a sample. Briefly, multiple RNAs can be isolated from cell or tissue samples using methods known in the art and described for example, in Sambrook et al. (1989) supra. Optionally, the gene transcripts can be converted to cDNA. A sampling of the gene transcripts are subjected to sequence-specific analysis and quantified. These gene transcript sequence abundances are compared against reference database sequence abundances including normal data sets for SLE patients and healthy patients. The likelihood that an SLE patient will develop renal disease can be predicted by correlation with the over expression and/or under expression of the transcripts identified herein.

Differential expression can also be determined by examining the protein product. A variety of techniques are available in the art for protein analysis. They include but are not limited to radioimmunoassays, ELISA (enzyme linked immunoradiometric assays), “sandwich” immunoassays, immunoradiometric assays, in situ immunoassays (using e.g., colloidal gold, enzyme or radioisotope labels), western blot analysis, immunoprecipitation assays, immunofluorescent assays and PAGE-SDS. One method to determine protein level involves (a) providing a biological sample containing polypeptides; and (b) measuring the amount of any immunospecific binding that occurs between an antibody reactive to the expression product of a gene of interest and a component in the sample, in which the amount of immunospecific binding indicates the level of the expressed proteins.

Antibodies that specifically recognize and bind to the protein products of these genes are required for these immunoassays. These may be purchased from commercial vendors or generated and screened using methods well known in the art. See, Harlow and Lane (1988) supra and Sambrook et al. (1989) supra. Alternatively, polyclonal or monoclonal antibodies that specifically recognize and bind the protein product of a gene of interest can be made and isolated using known methods.

In diagnosing abnormalities or pathologies characterized by a differential expression of genes, one typically conducts a comparative analysis of the subject and appropriate controls. Preferably, a diagnostic test includes a control sample derived from a subject (hereinafter “positive control”), that exhibits the predicted change in expression of a gene of interest and clinical characteristics of SLE. Alternatively, a diagnosis also includes a control sample derived from a subject (hereinafter “negative control”), that lacks the clinical characteristics of interest and whose expression level of the gene at question is within a normal range. A positive correlation between the subject and the positive control with respect to the identified alterations indicates the likelihood of the presence of or a predisposition to the abnormality of interest. A lack of correlation between the subject and the negative control can confirm the diagnosis.

Screening Assays. The present invention also provides a screen for identifying leads, drugs, therapeutic biologics and methods for treating SLE and related pathologies. In one aspect, the screen identifies lead compounds or biological agents which are useful for the treatment of an abnormality such as SLE and which is characterized by differential expression of a polynucleotide of Table 1A, 1B, 2A, 2B, 2C, 3A, 3B or 4. Thus, one way to practice the method in vitro, suitable cell cultures or tissue cultures are first provided. The cell can be a cultured cell or a genetically modified cell which differentially expresses at least one gene identified in Table 1A, 1B, 2A, 2B, 2C, 3A, 3B or 4. Alternatively, the cells can be from one or more subjects. Preferably the cell is a PBMC. It also is desirable to maintain an additional separate cell culture; one which does not receive the agent being tested as a control.

As is apparent to one of skill in the art, the method can be modified for high throughput analysis and suitable cells may be cultured in microtiter plates and several agents may be assayed at the same time by noting genotypic changes, phenotypic changes and/or cell death. As is apparent to those skilled in the art, an “effective” amount must be added which can be empirically determined.

The screen involves contacting the agent with a test cell characterized by differential expression of gene of interest and then assaying the cell for the level of expression. In some aspects, it may be necessary to determine the level of gene expression prior to the assay. This provides a base line to compare expression after administration of the agent to the cell culture. In another embodiment, the test cell is a cultured cell from an established cell line that differentially expresses a gene of interest. An agent is a possible therapeutic agent if gene expression is returned (reduced or increased) to a level that is present in a cell in a normal or healthy state, or the cell selectively dies, or exhibits reduced rate of growth. In yet another aspect, the test cell or tissue sample is isolated from the subject to be treated and one or more potential agents are screened to determine the optimal therapeutic and/or course of treatment for that individual patient.

For the purposes of this invention, an “agent” is intended to include, but not be limited to a biological or chemical compound such as a simple or complex organic or inorganic molecule, a peptide, a protein, antibody, an oligonucleotide, and the like. A vast array of compounds can be synthesized, for example oligomers, such as oligopeptides and oligonucleotides and synthetic organic compounds based on various core structures; these compounds are also included in the term “agent”. In addition, various natural sources can provide compounds for screening, such as plant or animal extracts and the like. It should be understood, although not always explicitly stated that the agent is used alone or in combination with another agent, having the same or different biological activity as the agents identified by the inventive screen. The agents and methods also are intended to be combined with other therapies.

When the agent is a nucleic acid, it can be added to the cell cultures by methods known in the art, which includes, but is not limited to calcium phosphate precipitation, microinjection or electroporation. Alternatively or additionally, the nucleic acid can be incorporated into an expression or insertion vector for incorporation into the cells. Vectors that contain both a promoter and a cloning site into which a polynucleotide can be operatively linked are well known in the art and briefly described infra.

Polynucleotides are inserted into vector genomes using methods well known in the art. For example, insert and vector DNA can be contacted, under suitable conditions, with a restriction enzyme to create complementary ends on each molecule that can pair with each other and be joined together with a ligase. Alternatively, synthetic nucleic acid linkers can be ligated to the termini of restricted polynucleotide. These synthetic linkers contain nucleic acid sequences that correspond to a particular restriction site in the vector DNA. Additionally, an oligonucleotide containing a termination codon and an appropriate restriction site can be ligated for insertion into a vector containing, for example, some or all of the following: a selectable marker gene, such as the neomycin gene for selection of stable or transient transfectants in mammalian cells; enhancer/promoter sequences from the immediate early gene of human CMV for high levels of transcription; transcription termination and RNA processing signals from SV40 for mRNA stability; SV40 polyoma origins of replication and ColE1 for proper episomal replication; versatile multiple cloning sites; and T7 and SP6 RNA promoters for in vitro transcription of sense and antisense RNA. Other methods are well-known and available in the art.

One can determine if the object of the method has been achieved by a return to “normal” gene expression levels. Kits containing the agents and instructions necessary to perform the screen and in vitro method as described herein also are claimed. When the subject is an animal such as a rat or mouse, the method provides a convenient animal model system which can be used prior to clinical testing of the therapeutic agent or alternatively, for lead optimization. In this system, a candidate agent is a potential drug if gene expression is returned to a normal level or if symptoms associated or correlated to the presence of cells containing differential expression of a gene of interest are ameliorated, each as compared to untreated, animal suffering from SLE or an associated condition. It also can be useful to have a separate negative control group of cells or animals which are healthy and not treated, which provides a basis for comparison.

The following materials and methods are intended to illustrate, but not limit this invention and to illustrate how to make and use the inventions described above.

Messenger RNA Samples. After informed consent, blood was obtained from 53 pediatric patients who satisfied diagnostic criteria of the American College of Rheumatology (ACR) for SLE (pedSLE) and 11 adult SLE patients (ASLE), as well as 10 adult fibromyalgia patients (AFIB) were recruited from rheumatology clinics. All the clinical and laboratory data pertaining to these patients were thoroughly accrued. The clinicians evaluated all the entry points from pediatric and adult patients to determine the disease activity index (SLEDAI) and determined the day of the blood draw. The controls were 12 pediatric subjects (children visiting the clinic for reasons other than autoimmunity or infectious disease) and 9 healthy adults. Blood leukocytes were isolated on Ficoll gradient and immediately processed for RNA extraction using the RNeasy™ kit (QIAGEN) according to the manufacturer's instructions.

Flow Cytometry. A fraction of patients cells was retained for flow cytometry analysis including the determination of T cells, B cells, plasmablasts (CD20-CD19 low CD38 high), monocytes as described by Arce et al. (2001) J Immunol 167:2361-2369, and DCs (DC kit; Beckton Dickinson). Leukocytes from healthy adults were cultured in RPMI enriched with 5% fetal calf serum for 6 hour with or without 1000 U/ml Interferon a2b (Intron A; Schering-Plough).

Staining of PBMCs and Sorted Granular Cells: PBMCs were stained with anti-CD14 PE (BD Biosciences) and sorted (FACS-Vantage™; Becton Dickinson) based on granularity (high forward side scatter/side light scatter) and lack of CD14 expression. Both unsorted PBMCs and sorted cells were allowed to adhere for 1 hour on slides previously coated with 0.1 mg/ml of poly-L-lysine (Sigma-Aldrich) for 1 hour at room temperature and fixed with 4% paraformaldehyde. After quenching with PBS-glycine (50 mM), cells were permeabilized with Triton X-100 (0.1%) for 10 minutes. They were subsequently washed with PBS-saponin (0.2%) and quenched with PBS-BSA-gelatin fish before staining with FITC-conjugated mouse anti-human myleoperoxidase (DakoCytomation). Cytospins of unsorted and sorted cells were stained with Giemsa or treated with p-phenylenediamine and catechol to detect cytoplasmic myeloperoxidase according to the method described by Hanker et al. (1978 Histochemistry 58:241-252). Fluorescence labeled cells were mounted in fluoromount mounting medium (Southern Biotechnology Associates, Inc.) for confocal microscopy. All micrographs were recorded using a confocal microscopy equipped with three Ar488, Kr568 and HeNe633 lasers (TCS-SP; Leica) as well as spectrophotometers using the objectives 63× or 100×PL APO with zoom 2.

Microarray Procedures. Global gene expression analysis was carried out using the Affymetrix HG-U133A and HG-U133B GeneChips (Affymetrix, Santa Clara, Calif.). The HG-U133 set contains almost 45,000 probe sets representing more than 39,000 transcripts derived from approximately 33,000 well substantiated human genes. The oligonucleotide probes used in the HG-U133 microarray are 25 nucleotides in length and hybridize to antisense of the transcript (e.g., the probes hybridize to a cDNA reverse transcribed from mRNA). 5 μg of total RNA extracted from samples was used to prepare anti-sense biotinylated RNA. Briefly, single-stranded complementary DNA (cDNA) and double-stranded cDNA were synthesized as described in U.S. patent publication number US 2004/0033498 (see paragraph 0045). In vitro transcription was carried out using biotinylated ribonucleotides (Enzo, Farmingdale, N.Y.). Biotinylated RNA was hybridized to the GeneChips at 45° C. for 16 hours. Staining, washing and scanning procedures were carried out according to Affymetrix protocols. Scanned GeneChips were individually inspected for abnormalities irregularities.

Data Analysis. Intensity values were scaled to 500 using global scaling in MAS 5.0 and data were exported in MS Excel for import into GeneSpring software (Silicon Genetics) for gene expression analyses. No “per chip” normalization was applied in GeneSpring as global scaling had already been applied in MAS 5.0. Global scaling adjusts for chip-to chip variations in hybridization intensities. For each probe set, normalization was carried out to either the median intensity of each probe set across all samples or to the median of a set of control samples depending on the purpose of the analysis. Subsequent analyses were performed from 22,664 probe sets on the microarrays that had a control signal of 50 or above (above the background intensity) and that were identified as “present” according to MAS 5.0 in 10 (15%) of 65 samples. Statistical comparisons were performed in GeneSpring using both parametric (Welch's approximate t-test) and non-parametric (Mann-Whitney U-test) methods. Unsupervised hierarchical clustering was performed using Standard correlation, Pearson correlation or Euclidian distance.

The Class Predictor algorithm in GeneSpring and Prediction Analysis of Microarrays (PAM) were used to find genes whose behavior is related to a given parameter. The class predictor algorithm is a supervised learning algorithm based on Fisher's exact test combined with k-nearest neighbors clustering method. PAM uses a “nearest shrunken centroid” method which is an enhancement of the simple nearest prototype (centroid) classifier.

Identification of genes associated with the likelihood of progression to renal disease. Two groups of patients were compared: Ten patients had renal disease at the time of blood draw (NN) and no renal involvement to date; Seven patients had no renal disease at the time of blood draw but have developed renal disease since (NY). To identify transcripts that showed altered transcription between those two groups parametric and non-parametric analyses were carried out as described previously. 345 transcripts were differentially expressed between the two groups. 185 transcripts were increased and 160 decreased in patients who developed nephritis compared to those who did not.

A supervised analysis using Prediction Analysis of Microarrays (PAM) was also used to classify and predict the diagnostic category (either NN or NY) for the patient samples based on gene expression profiles. We started from 345 probe sets that were differentially expressed between SLE patients that have no renal disease to date (NN) and those that developed renal disease some time after the date of blood draw (NY), PAM identified a minimum of 99 probe sets that distinguished between the two groups with 100% accuracy. A minimum of 37 probe sets predicted those patients who have not developed renal disease with 100% accuracy as well as those patients who have developed renal disease with 86% accuracy.

The development of renal disease was diagnosed by increase levels of creatine and protein in the urine. Most of these patients had type III or type IV nephritis. Type II=4; Type III=8; Type III/V=2; Type IV=7; Type V=3. Genes which are down-regulated in patients likely to develop renal disease are shown in Table 1A, supra. Genes which are up-regulated in patients likely to develop renal disease are shown in Table 1B, supra.

All Adult SLE Patients Tested Display Similar IFN and Granulopoiesis Signatures to Pediatric SLE Patients. Studies using blood from adult SLE patients have reported a type I IFN signature only in approximately 50% of patients. Differences in gene expression in our cohort of adult SLE patients compared to the pediatric patients were also examined A set of 21 adult patients who were positive for antinuclear-antibodies (ANA) were collected. Eleven patients were diagnosed as having adult SLE (ASLE) and 10 Fibromyalgia (AFIB).

Unsupervised hierarchical clustering of both probe sets and patient samples using 3004 genes differentially expressed in pediatric SLE patients was determined (not shown). Apart from two pedSLE outliers that branch off first, the patients form two clusters based on molecular signatures: clusters A and B. Cluster B contains 28 patients (22 pedSLE and 6 ASLE), the majority of whom have more active disease: 20/28 (71%) have a SLEDAI ≧10. Cluster A contains a mixture of healthy, AFIB and SLE patients. Cluster A separates into two sub-clusters, Clusters A1 and A2. Cluster A1 contains all the healthy patients plus 8/10 AFIB patients, as well as two inactive pedSLE. Of the two pediatric SLE patients that fell within a healthy/AFIB cluster, one has been in complete remission for up to at least 5 years (OS), the other (SLE 62) was very inactive, and has a SLEDAI of 4. Cluster A2 contains 27 pediatric SLE patients and 5 ASLE patients, 23 (68%) of whom have a SLEDAI of <8. It was found that, expression of PLSCR1, GTPBP2, PCTAIRE2BP, DNAPTP6, GPR84, B4GALT5, FRAT2 and PAFAH1B in adult SLE do NOT correlate with SLEDAI in those patients.

When only the type I IFN-regulated probes were used for clustering, two pedSLE outliers branch off first, then 2 major clusters were generated with all healthy controls plus all AFIB falling into cluster C and all ASLE plus 47/53 pediatric SLE falling into cluster D (data not shown). All adult SLE patients as well as 50/53 (94%) of pediatric SLE display a gene expression pattern consistent with exposure of PBMCs to type I interferon, whereas none of the adult fibromyalgia (AFIB) patients show an interferon signature. FIG. 1 shows the direct correlation between levels of expression of the IFN-regulated genes GTPBP2 and DNAPTP6 with respect to SLEDAI score in pediatric SLE patients. FIG. 2 shows the direct correlation between levels of expression of the non-IFN-regulated genes GPR84, B4GALT5, FRAT2 and PAFAH1B with respect to SLEDAI score in pediatric SLE patients. The genes in FIGS. 1 and 2 are listed in Table 4, supra.

Forty-Five Genes Discriminate SLE From Influenza And Healthy. As viral infection induces an interferon response similar to SLE, the minimum set of transcripts that discriminate SLE from flu as well as from healthy was examined. A supervised learning algorithm based on Fisher's exact test combined with k-nearest neighbors clustering method was applied to identify the minimum number of transcripts that discriminate SLE from flu and healthy both by supervised learning and hierarchical clustering. Tables 3A and 3B, supra, list the identity of 45 transcripts that discriminate SLE from flu and healthy samples. Genes listed in Table 3A are down-regulated in SLE patients, while genes listed in Table 3B are up-regulated in SLE patients. Patient samples separate into two major clusters: cluster M and cluster N (not shown). Using the present invention it was found that 53/53 (100%) of SLE patients fall into cluster N, while all health and 14/15 flu patients segregate into cluster M. Only one of the flu patient's samples (INF095) clustered with SLE patient samples in cluster N.

It will be understood that particular embodiments described herein are shown by way of illustration and not as limitations of the invention. The principal features of this invention can be employed in various embodiments without departing from the scope of the invention. Those skilled in the art will recognize, or be able to ascertain using no more than routine experimentation, numerous equivalents to the specific procedures described herein. Such equivalents are considered to be within the scope of this invention and are covered by the claims.

All publications and patent applications mentioned in the specification are indicative of the level of skill of those skilled in the art to which this invention pertains. All publications and patent applications are herein incorporated by reference to the same extent as if each individual publication or patent application was specifically and individually indicated to be incorporated by reference.

In the claims, all transitional phrases such as “comprising,” “including,” “carrying,” “having,” “containing,” “involving,” and the like are to be understood to be open-ended, i.e., to mean including but not limited to. Only the transitional phrases “consisting of” and “consisting essentially of,” respectively, shall be closed or semi-closed transitional phrases.

All of the compositions and/or methods disclosed and claimed herein can be made and executed without undue experimentation in light of the present disclosure. While the compositions and methods of this invention have been described in terms of preferred embodiments, it will be apparent to those of skill in the art that variations may be applied to the compositions and/or methods and in the steps or in the sequence of steps of the method described herein without departing from the concept, spirit and scope of the invention. More specifically, it will be apparent that certain agents which are both chemically and physiologically related may be substituted for the agents described herein while the same or similar results would be achieved. All such similar substitutes and modifications apparent to those skilled in the art are deemed to be within the spirit, scope and concept of the invention as defined by the appended claims.

Claims

1-32. (canceled)

33. A systemic lupus erythematosus diagnostic array comprising:

at least 10 probes that hybridize under stringent conditions to one or more polynucleotides listed Table 1A and/or Table 1B;
at least 375 probes that hybridize under stringent conditions to one or more polynucleotides listed in Table 2A and/or Table 2B;
at least 10 probes that hybridize under stringent conditions to one or more polynucleotides listed Table 3A and/or Table 3B; and
at least 2 probes that hybridize under stringent conditions to one or more polynucleotides listed Table 4, mixtures and combinations thereof.

34. The array of claim 33, wherein the polynucleotides are probes.

35. The array of claim 33, wherein the polynucleotides are amplification primers.

36. The array of claim 33, wherein the polynucleotides are attached to an array in a pre-determined location.

37. A kit comprising:

an array comprising:
at least 10 probes that hybridize under stringent conditions to a polynucleotide of Table 1A and/or Table 1B;
at least 375 probes that hybridize under stringent conditions to a polynucleotide of Table 2A and/or Table 2B;
at least 10 probes that hybridize under stringent conditions to a polynucleotide of Table 3A and/or Table 3B;
at least 2 probes that hybridize under stringent conditions to a polynucleotide of Table 4, mixtures and combinations thereof; and
instructions for determining the identity of each polynucleotide and its location in the array.

38-41. (canceled)

42. A computer implemented method for determining the genotype of a sample comprising:

obtaining a plurality of sample probe intensities from a patient suspected of having SLE;
diagnosing systemic lupus erythematosus based upon the sample probe intensities; and
calculating linear correlation coefficient between the sample probe intensities and reference probe intensities; and accepting the tentative genotype as the genotype of the sample if the linear correlation coefficient is greater than a threshold value.

43. The method of claim 42, wherein the probes comprise:

at least 10 probes that hybridize under stringent conditions to a polynucleotide of Table 1A and/or Table 1B;
at least 375 probes that hybridize under stringent conditions to a polynucleotide of Table 2A and/or Table 2B;
at least 10 probes that hybridize under stringent conditions to a polynucleotide of Table 3A and/or Table 3B;
at least 2 probes that hybridize under stringent conditions to a polynucleotide of Table 4, mixtures and combinations thereof; and
mixtures and combinations thereof.

44. The method of claim 42, wherein the probes comprise one or more genes selected from: Accession No. Database Gene NM_019096 GenBank GTPBP2 AK002064.1 GenBank DNAPTP6 AF237762 GenBank GPR84 NM_004776.1 GenBank B4GALT5 AB045118.1 GenBank FRAT2 L13386.1 GenBank PAFAH1B1.

45. The method of claim 42, wherein at least one gene comprises C1 ORF 29 (Affymetrix ID 204439_at).

Patent History
Publication number: 20100113293
Type: Application
Filed: Sep 11, 2009
Publication Date: May 6, 2010
Applicant: BAYLOR RESEARCH INSTITUTE (Dallas, TX)
Inventors: Maria Virginia Pascual (Dallas, TX), Jacques F. Banchereau (Dallas, TX), Lynda B. Bennett (Columbia, MO)
Application Number: 12/558,334
Classifications
Current U.S. Class: In Silico Screening (506/8); Nucleotides Or Polynucleotides, Or Derivatives Thereof (506/16)
International Classification: C40B 30/02 (20060101); C40B 40/06 (20060101);