Abstract: Determining relative relationship includes receiving recombinable deoxyribonucleic acid (DNA) information of a first user and recombinable DNA information of a second user, determining, based at least in part on the recombinable DNA information of the first user and recombinable DNA information of the second user, a predicted degree of relationship between the first user and the second user, and in the event that the expected degree of relationship between the first user and the second user at least meets the threshold, notifying at least the first user about a relative relationship with the second user.

Abstract: The present invention provides methods, systems, and code for accurately classifying whether a sample from an individual is associated with irritable bowel syndrome (IBS). In particular, the present invention is useful for classifying a sample from an individual as an IBS sample using a statistical algorithm and/or empirical data. The present invention is also useful for ruling out one or more diseases or disorders that present with IBS-like symptoms and ruling in IBS using a combination of statistical algorithms and/or empirical data. Thus, the present invention provides an accurate diagnostic prediction of IBS and prognostic information useful for guiding treatment decisions.

Abstract: The present invention provides a method for identifying siRNA target motifs in a transcript using a position-specific score matrix approach. The invention also provides a method for identifying off-target genes of an siRNA using a position-specific score matrix approach. The invention further provides a method for designing siRNAs with higher silencing efficacy and specificity. The invention also provides a library of siRNAs comprising siRNAs with high silencing efficacy and specificity.

Abstract: Provided are a computer program product, system, and method for identifying modified chunks in a data set for storage. Modifications are received to at least one of the chunks in the data set. A determination is made of at least one range of least one of the chunks including data affected by the modifications determination is made as to whether at least one chunk outside of the at least one range has changed. For each determined at least one chunk outside of the at least one range that has changed, a determination is made of at least one new chunk and a new digest of the at least one new chunk and information is added on the at least one new chunk and information to locate the new chunk in the data set.

Abstract: A method for filing a tax form, comprising generating a basic return form, receiving a plurality of basic return answers to a plurality of basic return questions from a user, obtaining aggregate tax data from a plurality of filed tax returns based on the plurality of basic return answers, determining a plurality of aggregate tax questions based on the aggregate tax data, determining a plurality of utilization levels for the plurality of aggregate tax questions, generating a summary input form comprising a first plurality of tax questions and a second plurality of tax questions, receiving a plurality of summary input answers to the first plurality of tax questions and the second plurality of tax questions from the user, completing the tax form based on the plurality of summary input answers to obtain a completed tax form, and filing the completed tax form with a tax authority.

Abstract: A unified communications appliance provides integration of various types of information, regardless of the modality, in a common, centralized interface where the various types of information are grouped based on what they are related to. For example, as is common with most modalities of information exchange, there exists a “subject” that is present in one of the fields of communication. The ability to associate all of the types of communication with a common “subject” (or conversation) and provide an interface that allows access to the various types of information, regardless of the modality is provided by the unified communications interface.

Abstract: This invention constructs a highly safe system for processing information for providing semantic information and/or information associated with the semantic information useful for each individual organism through effective utilization of differences in nucleotide sequence-related information among individual organisms. This system comprises steps of: (a) obtaining positional information representing a position in a nucleotide sequence in accordance with a request for an object and/or service; and (b) evaluating adequacy of transmission of nucleotide sequence-related information corresponding to the positional information obtained in step (a), based on the flag information associated with the positional information for evaluating adequacy of transmission of nucleotide sequence-related information associated with the positional information representing a position in a nucleotide sequence.

Abstract: A method for storing time series data in a key-value database includes receiving time series data relating to the occurrence of an event. An addressing scheme that defines attributes for inclusion in keys for the event is analyzed. The attributes include time granularity attributes of different sizes. The method generates a key corresponding to the time series data based on the analyzing of the addressing scheme including attributes specified in the addressing scheme that are related to the event and one of the attributes represents one of the plurality of time granularity attributes. The method further issues a command to the key-value database to store a record of the occurrence of the event as a value in the key-value database where stored values in the key-value database corresponding keys may be used to satisfy queries relating to the event over a range of time.

Abstract: Determining a genetic sequence for a particular site on an individual's genome is disclosed, including: receiving a measurement associated with a particular sequence for the particular site on the individual's genome, receiving contextual information associated with a context of the individual within a larger collection of genetic information, and using the measurement associated with the particular sequence and the contextual information to compute an improved determination of the genetic sequence at the particular site on the individual's genome.

Abstract: The invention provides a high resolution three-dimensional structure of a deacylated transfer RNA protein synthesis modulator in association with a large ribosomal subunit. The protein synthesis modulator binds at least a portion of the E-site of a large ribosomal subunit. The invention provides methods for designing and/or identifying analogs of candidate molecules, for example, analogs or derivatives of the protein synthesis modulator, that bind and/or modulate the protein biosynthetic activity of the ribosome.

Abstract: The invention provides a method for selecting one or more genes from among a predetermined group of genes whose expression level is significantly different among a first group of individuals in a population in comparison with a second group within the population. The first group of individuals may be, a group of individuals suffering from an illness that responded to a predetermined treatment. The second group of individuals may be a group of individuals suffering from the same illness that did not respond to the treatment.

Abstract: Example apparatus, methods, and computers control configurable, variable data reduction. One example method includes identifying data reduction controlling attributes in an object to be data reduced by a configurable variable data reducer. The attributes provide information upon which decisions concerning whether and/or how to data reduce the object can be based. The example method also includes controlling a configurable variable data reducer to selectively data reduce the object based, at least in part, on the data reduction controlling attributes.

Abstract: The present invention is related to a method for determining the sensitizing potential of a chemical (test) compound, comprising the steps of: (a) Providing a suitable cell culture of a specific cell type and providing a test sample and a control sample thereof, said test sample and said control sample being identical, (b) Exposing said test sample to a chemical compound in a solvent and exposing said control sample to said solvent for a predetermined period of time, (c) Determining for the test sample and the control sample gene expressions xi for a subset of i=1 to n genes selected from the group of genes corresponding to SEQ ID NOs 1 to 153, (d) For this subset of n genes looking up in a database the gene expressions xi for a set of control and test samples, the test samples being exposed for said predetermined period of time to a set of chemical sensitizing model compounds comprising both sensitizers and non-sensitizers, (e) Using the gene expressions of the said test sample and the said control sample

Abstract: The present invention provides methods for rapid forensic analysis of mitochondrial DNA by amplification of a segment of mitochondrial DNA containing restriction sites, digesting the mitochondrial DNA segments with restriction enzymes, determining the molecular masses of the restriction fragments and comparing the molecular masses with the molecular masses of theoretical restriction digests of known mitochondrial DNA sequences stored in a database.

Abstract: An apparatus and computer program product determine a target data type in an environment having a plurality of levels. The plurality of levels comprise a source level, zero or more intermediate levels, and a target level. The zero or more intermediate levels are between the source level and the target level. A target data type representing a transformation of a data type of an associated datum as the datum passes from the source level through the zero or more intermediate levels to the target level is generated. The target data type comprises a sequence of nested transformation functions having an innermost transformation function and an outermost transformation function.

Abstract: The invention provides a high resolution three-dimensional structure of cycloheximide, either alone or in association with a large ribosomal subunit. The invention provides methods for designing and/or identifying cycloheximide analogs and derivatives that bind and/or modulate the protein biosynthetic activity of the ribosome.

Abstract: An exemplary object of the present invention is to provide method, predictor and predicting program for predicting secondary structure of nucleic acid sequence capable of evaluating not only overall similarity and but also localized similarity of secondary structure of nucleic acid sequence. A method according to an exemplary aspect of the present invention includes the steps of: extracting a structural element of the secondary structure from the secondary structure of the nucleic acid sequence; and evaluating a similarity of each structural element of the nucleic acid sequence as a subject, based on a feature vector of the structural element.

Abstract: An apparatus, and an associated method, facilitates synchronization of a wireless device, such as a portable mobile station. The wireless device is positioned at a support dock, such as a charging cradle of a charging assembly. Positioning of the wireless device at the support dock is detected, such a through detection of application of charging current to the wireless device. Detection of the positioning causes automatic initiation of synchronization operations. Synchronization operations are initiated and then carried out.

Abstract: The invention relates a method of quantifying CD64 and CD163 expression in leukocytes and, specifically to a kit for use with a flow cytometer including a suspension of quantitative fluorescent microbead standards, fluorescent labeled antibodies directed to CD64 and CD163, and analytical software. The software is used to take information on the microbead suspension and fluorescent labeled antibodies from a flow cytometer and analyse data, smooth curves, calculate new parameters, provide quality control measures and notify of expiration of the assay system.

Abstract: Numerous cancer fusion genes have been identified and studied, and in some cases therapy or diagnostic techniques have been designed that are specific to the fusion protein encoded by the fusion gene. However, there has been little progress in understanding the general features of cancer fusions genes in a way that could provide the foundation for an algorithm for predicting the occurrence of a fusion gene once the chromosomal translocation points have been identified by karyotype analyses. In this study, characterization of 59 cancer fusion genes indicated that all but a small percentage of the genes involved in fusion events are either relatively large, compared to neighboring genes, or are highly conserved in evolution. These results support a basis for designing algorithms that could have a high degree of predictive value in identifying fusion genes once conventional microscopic analyses have identified the chromosomal breakpoints.

Abstract: Identifying suspect electronic tax data of an electronic tax return prepared using a tax preparation program. A first field of the tax return is populated with first tax data. The program selects statistical data for another type of tax data based upon the first tax data. A second field is populated with second tax data, which is compared with selected statistical data to determine whether the second tax data satisfies pre-determined criteria relative to the selected statistical data, e.g., whether the second tax data is within a pre-determined range or standard deviation of a mean or average of statistical data. If the second tax data does not satisfy the criteria, e.g., is outside of the range or standard deviation, the program issues an alert to notify the preparer of the specific location of the suspect data. The alert may be issued in real time while the tax return is being prepared.

Abstract: Systems and methods are disclosed for compressing and comparing data such as genomic data. The disclosed systems and methods may include selecting a segment, creating a delta representation of the segment, the delta representation comprising a script, and storing the script. Furthermore, the disclosed systems and methods may include receiving a first script comprising a compressed version of a first segment and receiving a second script comprising a compressed version of a second segment. The disclosed systems and methods may further include comparing the first script to the second script and determining if the first segment matches the second segment based upon the comparison of the first script to the second script.

Abstract: A method of enhancing the efficacy of a monoclonal antibody preparation wherein antigens from patients are tested for their reactivity with the antibody. An amino acid sequence of an expressed protein is deuced from a nucleotide sequence determined by isolation and analysis of a target molecule gene in a biopsy from a patient. This is compared with the previously determined amino acid sequence recognized by the monoclonal antibody preparation in order to assess the fitness of patients for administration of the monoclonal antibody preparation.

Abstract: A computer program product is provided and includes a tangible storage medium readable by a processing circuit and on which instructions are stored for execution by the processing circuit for initially verifying a presence of parameters passed to a parameter database and that a selected group of the parameters are greater than or equal to zero, parsing optional block data to validate the optional block data, determine a length thereof and a number of optional blocks contained therein and proceeding with one of a secondary info-parsing and a secondary data-parsing operation with respect to the optional block data in accordance with content of the parameters passed to the parameter database

Abstract: A method of determining kinetic parameters for a reversible molecular interaction between a ligand immobilized to a solid support surface and a binding partner to the ligand in solution, comprises sequentially, without intermediate regeneration or renewal of the immobilized ligand, flowing a plurality of fluid volumes containing different known concentrations of the binding partner over the solid support surface, monitoring the momentary amount of binding partner bound to the solid support surface related to time and solution concentration of binding partner and collecting the binding data, and determining the kinetic parameters by globally fitting a predetermined kinetic model for the interaction between the binding partner and the immobilized ligand to the collected binding data, which model allows for mass transport limitation at the solid support surface.

Abstract: The present invention provides methods, systems, and code for accurately classifying whether a sample from an individual is associated with inflammatory bowel disease (IBD) or a clinical subtype thereof. In particular, the present invention is useful for classifying a sample from an individual as an IBD sample using a statistical algorithm and/or empirical data. The present invention is also useful for differentiating between a clinical subtype of IBD such as Crohn's disease (CD) and ulcerative colitis (UC) using a statistical algorithm and/or empirical data. Thus, the present invention provides an accurate diagnostic prediction of IBD or a clinical subtype thereof and prognostic information useful for guiding treatment decisions.

Abstract: A method of generating standard brain model from a bio-expression system includes performing steps of registration to input standard surface and individual surface into affine registration; recording a transformation parameters from the affine registration; performing steps of inputting a individual neuropil and transform parameters into an affine transformation; applying the data of the affine transformation to transform individual neuropil to achieve transformed individual neuropil; and performing a step of affine registration to register a standard neuropil to the transformed individual neuropil to achieve a resulting transformation, wherein the resulting transformation can be output as a position and orientation of standard neuropil within the standard surface.

Abstract: Provided are a computer program product, system, and method for identifying modified chunks in a data set for storage. Modifications are received to at least one of the chunks in the data set. A determination is made of at least one range of least one of the chunks including data affected by the modifications determination is made as to whether at least one chunk outside of the at least one range has changed. For each determined at least one chunk outside of the at least one range that has changed, a determination is made of at least one new chunk and a new digest of the at least one new chunk and information is added on the at least one new chunk and information to locate the new chunk in the data set.

Abstract: Provided are a computer program product, system, and method for identifying modified chunks in a data set for storage. Information is maintained on a data set of variable length chunks, including a digest of each chunk and information to locate the chunk in the data set. Modifications are received to at least one of the chunks in the data set. A determination is made of at least one range of least one of the chunks including data affected by the modifications, wherein each range identifies one chunk or sequential chunks having data affected by the modifications. The at least one chunk in each range is processed to determine at least one new chunk in each range, and for each determined new chunk, a digest of the new chunk. A determination is made as to whether at least one chunk outside of the at least one range has changed. For each determined at least one chunk outside of the at least one range that has changed, a determination is made of at least one new chunk and a new digest of the at least one new chunk.

Abstract: A system and method for converting static/still medical images of a particular patient into dynamic and interactive images interacting with medical tools including medical devices by coupling a model of tissue dynamics and tool characteristics to the patient specific imagery for simulating a medical procedure in an accurate and dynamic manner.

Abstract: The invention relates to computer-implemented methods and systems for identifying regulatory relationships between expressed regulating polypeptides and targets of the regulatory activities of such regulating polypeptides. More specifically, the invention provides a new method for identifying regulatory dependencies between biochemical species in a cell. In particular embodiments, provided are computer-implemented methods for identifying a regulatory interaction between a transcription factor and a gene target of the transcription factor, or between a transcription factor and a set of gene targets of the transcription factor. Further provided are genome-scale methods for predicting regulatory interactions between a set of transcription factors and a corresponding set of transcriptional target substrates thereof.

Abstract: Embodiments of the present invention provide, among other things, methods, apparatus, and systems for tuning a semiempirical process for predicting energy for different molecular configurations. In an example method, an energy value and an energy gradient are determined for each of a plurality of molecular configurations using an accurate method. A functional form of the semiempirical process is optimized using the determined energy values and energy gradients via multiobjective optimization. The functional form relates one or more parameters to energy values and energy gradients.

Abstract: The present invention provides techniques of recording signals. In one aspect of the invention, a method of recording a signal comprises the following steps. One or more errors are selectively introduced during synthesis of a polymer in response to the signal. The one or more occurrences of the one or more errors in the synthesized polymer are recorded. The synthesis of the polymer may comprise a polymer synthetase that can selectively introduce the one or more errors in response to the signal. A method for analyzing signals is also provided.

Abstract: A method for prognosing osteoporosis phenotypes or estimating osteoporosis quantitative traits comprising determining outcomes for selected SNP variables and clinical variables. Products and methods for genotyping multiple osteoporosis associated genetic variations.

Abstract: According to some embodiments, a data source is accessed from which data will be retrieved via a plurality of processing threads. The data source may have, for example, a plurality of records with each record being associated with a plurality of identifiers. Each of the plurality of identifiers may be dynamically evaluated as a potential range identifier, and the evaluation may be based at least in part on a number of distinct values present within each identifier. One of the potential range identifiers may be selected as a selected range identifier, and the plurality of records may be divided into ranges defined using the selected range identifier.

Abstract: The present invention is a method for communicating and forecasting the extent of toxicity of a given treatment program by deploying a uniform multi-modality grading system, and capturing significant high-grade events within defined risk periods to create a treatment-specific summary rating or classification of the toxicity experience.

Abstract: A method and system for performing at least one transaction on at least one column of a table in a database system is disclosed. The method includes determining whether a first transaction of the at least one transaction fulfills all of at least one criteria. The method further includes ensuring that the at least one column is in a shared numeric lock if the first transaction fulfills all of the at least one criteria, wherein the shared numeric lock is a lock that allows at least a second transaction fulfilling all of the at least one criteria to access the same column concurrently with the first transaction without releasing the shared numeric lock between transactions, and wherein the shared numeric lock is released only after all of the transactions fulfilling all of the criteria have completed processing. The method further includes processing the first transaction.

Abstract: The present invention provides a method of confirming the gene expression, useful in the decision of a five year survival rate of a patient with lung cancer and the use of a DNA probe kit in the method. A method useful in the decision of a survival rate of a patient with non-small cell lung cancer comprising confirming the expression strength of at least one gene in lung cancer tissues isolated from the patient.

Abstract: The present invention is generally directed to a system, method and article of manufacture for modifying data represented abstractly through an abstraction model. In one embodiment, a data repository abstraction layer provides a logical view of an underlying data repository that is independent of the particular manner of data representation. A query abstraction layer is also provided and is based on the data repository abstraction layer. A runtime component performs translation of an abstract query into a form that can be used against a particular physical data representation.

Abstract: An IC card is configured to receive personalization commands which are used to transmit data to the IC card. An access control list is associated with the data. The data is stored in the IC card in a record structure that includes a plurality of entries. The access control list is stored in the IC card in the record structure. The personalization commands include a card personalization specification (CPS).

Abstract: In an embodiment, a method comprises dividing collected data into data clusters based on proximity of the data and adjusting the clusters based on density of data in individual clusters. Based on first data points in a first cluster, a first average point in the first cluster is determined. Based on second data points in a second cluster, a second average point in the second cluster is determined. Aggregate data, comprising the first average point and the second average point, are stored in storage. Upon receiving a request to provide data for a particular coordinate, the reconstructed data point is determined by interpolating between the first average point and the second average point at the particular coordinate. Accordingly, aggregated data may be stored and when a request specifies data that was not actually stored, a reconstructed data point with an approximated data value may be provided as a substitute.

Abstract: A method of determining and optimizing the location of a new insurance agency is disclosed to increase market penetration of underrepresented markets. The method comprises the use of a scoring algorithm to rank various geographic regions or related zip codes. The scoring algorithm may be implemented by a location modeling system based on variables selected by a user. In addition, the various ranked geographic regions or related zip codes may be analyzed for proximity to natural or man made perils.

Abstract: The invention provides a method for verifying correctness of a database system, comprising: receiving SQL instruction; extending access paths of the received SQL instruction; executing the SQL instruction by using the extended access paths; and verifying correctness of the database system according to result of executing the SQL instruction. With the method and system of the invention, the object of verifying correctness of a database system by automatically extending access paths of SQL statement may be achieved, and the object of verifying correctness of a database system scientifically, effectively and purposefully based on ratio of error or defect present in database itself due to various data manipulation approaches (different values of access path elements) may also be achieved.

Abstract: The present invention concerns a method for identifying the functionality of each member of a family of nucleic acids interact with the first family. Nucleic acids from the first family are put into functionally related clusters that share biological information obtained from the second family. The invention also relates to the refinement and accurate prediction of interactions between the first family and the second family of nucleic acids. The invention also applies to the use of such functional information to identify targets and mechanisms for therapeutic applications.

Abstract: Methods of identifying allele-specific changes in genomic DNA copy number are disclosed. Methods for identifying homozygous deletions and genetic amplifications are disclosed. An array of probes designed to detect presence or absence of a plurality of different sequences is also disclosed. The probes are designed to hybridize to sequences that are predicted to be present in a reduced complexity sample. The methods may be used to detect copy number changes in cancerous tissue compared to normal tissue. The methods may be used to diagnose cancer and other diseases associated with chromosomal anomalies.

Abstract: Embodiments of the present invention provide a method, system and computer program product for computer visualization of drugs for drug interaction information retrieval. In an embodiment of the invention, a method for computer visualization of drugs for drug interaction information retrieval can be provided. The method can include acquiring imagery of multiple different substances and detecting identifying content in each acquired image to determine an identity of each substance corresponding to each acquired image. The method also can include retrieving drug interaction data for each substance using the determined identity and correlating the drug interaction data for at least one of the substances with at least one other of the substances. Finally, the method can include displaying the correlated drug interaction data.

Abstract: A method for classifying a test tissue sample into a class from among K classes, where the test tissue sample has an associated gene expression vector is provided. For each class k from among the K classes, a gene expression matrix is provided based upon a gene expression level in one or more tissue samples known to be in the class k. One or more eigenvectors of the covariance matrix Cx of the centralized gene expression matrix are calculated. A metric ?k that is indicative of the extent of dissimilarity between the gene expression vector and the gene expression matrix is calculated using an algebraic expression involving one or more of the eigenvectors of the matrix Cx. The test tissue sample is then classified into a class k for which the metric ?k is minimum among the k classes.

Abstract: Least Square Deconvolution (LSD) uses quantitative allele peak data, for example, allele peak area, allele peak height and optical density, derived/obtained from a sample containing the DNA of more than one contributor to resolve the best-fit genotype profile of each contributor. The resolution is based on finding the least square fit of the mass ratio coefficients at each locus to come closest to the quantitative allele peak data. Consistent top-ranked mass ratio combinations from each locus can be pooled to form at least one composite DNA profile at a subset of the available loci. The top-ranked DNA profiles can be used to check against the profile of a suspect or be used to search for a matching profile in a DNA database.

Abstract: There is disclosed a data processing system implemented method, a data processing system, and an article of manufacture for directing a data processing system to maintain a database table associated with an initial maintenance scheduling interval. The data processing system implemented method includes selecting a randomizing factor, and selecting a new maintenance scheduling interval for the database table based on the initial maintenance scheduling interval and the selected randomizing factor.

Abstract: The present invention concerns the design and construction of diverse peptide and polypeptide libraries. In particular, the invention concerns methods of analytical database design for creating datasets using multiple relevant parameters as filters, and methods for generating sequence diversity by directed multisyntheses oligonucleotide synthesis. The present methods enable the reduction of large complex annotated databases to simpler datasets of related sequences, based upon relevant single or multiple key parameters that can be individually directly defined. The methods further enable the creation of diverse libraries based on this approach, using multisynthetic collections of discrete and degenerate oligonucleotides to capture the diverse collection of sequences, or portions thereof.