Abstract: The present invention is based on the elucidation of the global changes in gene expression and the identification of toxicity markers in tissues or cells exposed to a known renal toxin. The genes may be used as toxicity markers in drug screening and toxicity assays. The invention includes a database of genes characterized by toxin-induced differential expression that is designed for use with microarrays and other solid-phase probes.

Abstract: The present invention is based on the elucidation of the global changes in gene expression and the identification of toxicity markers in kidney tissues or cells exposed to a known renal toxin. The genes may be used as toxicity markers in drug screening and toxicity assays. The invention includes a database of genes characterized by toxin-induced differential expression that is designed for use with microarrays and other solid-phase probes.

Abstract: The present invention is based on the elucidation of the global changes in gene expression and the identification of toxicity markers in kidney tissues or cells exposed to a known renal toxin. The genes may be used as toxicity markers in drug screening and toxicity assays. The invention includes a database of genes characterized by toxin-induced differential expression that is designed for use with microarrays and other solid-phase probes.

Abstract: The present invention is based on the elucidation of the global changes in gene expression and the identification of toxicity markers in tissues or cells exposed to a known cardiotoxin. The genes may be used as toxicity markers in drug screening and toxicity assays. The invention includes a database of genes characterized by toxin-induced differential expression that is designed for use with microarrays and other solid-phase probes.

Abstract: The present invention is based on the elucidation of the global changes in gene expression and the identification of toxicity markers in tissues or cells exposed to a known cardiotoxin. The genes may be used as toxicity markers in drug screening and toxicity assays. The invention includes a database of genes characterized by toxin-induced differential expression that is designed for use with microarrays and other solid-phase probes.

Abstract: The present invention is based on the elucidation of the global changes in gene expression and the identification of toxicity markers in tissues or cells exposed to a known toxin. The genes and their encoded proteins may be used as toxicity markers in drug screening and toxicity assays. The invention also includes a database of genes and/or proteins characterized by toxin-induced differential expression.

Abstract: The present invention is based on the elucidation of the global changes in gene expression and the identification of toxicity markers in tissues or cells exposed to a known cardiotoxin. The genes may be used as toxicity markers in drug screening and toxicity assays. The invention includes a database of genes characterized by toxin-induced differential expression that is designed for use with microarrays and other solid-phase probes.

Abstract: The present invention is based on the elucidation of the global changes in gene expression and the identification of toxicity markers in tissues or cells exposed to a known toxin. The genes may be used as toxicity markers in drug screening and toxicity assays. The invention includes a database of genes characterized by toxin-induced differential expression that is designed for use with microarrays and other solid-phase probes.

Abstract: The present invention is based on the elucidation of the global changes in gene expression and the identification of toxicity markers in liver tissues or cells exposed to a known toxin. The genes may be used as toxicity markers in drug screening and toxicity assays. The invention includes a database of genes characterized by liver toxin-induced differential expression that is designed for use with microarrays and other solid-phase probes.

Abstract: The present invention is based on the elucidation of the global changes in gene expression and the identification of toxicity markers in tissues or cells exposed to a known toxin. The genes may be used as toxicity markers in drug screening and toxicity assays. The invention includes a database of genes characterized by toxin-induced differential expression that is designed for use with microarrays and other solid-phase probes.

Abstract: The present invention is based on the elucidation of the global changes in gene expression and the identification of toxicity markers in kidney tissues or cells exposed to a known renal toxin. The genes may be used as toxicity markers in drug screening and toxicity assays. The invention includes a database of genes characterized by toxin-induced differential expression that is designed for use with microarrays and other solid-phase probes.

Abstract: The present invention is based on the elucidation of the global changes in gene expression and the identification of toxicity markers in tissues or cells exposed to a known renal toxin. The genes may be used as toxicity markers in drug screening and toxicity assays. The invention includes a database of genes characterized by toxin-induced differential expression that is designed for use with microarrays and other solid-phase probes.

Abstract: An automated system and method are provided for analyzing gene expression data obtained from a plurality of microarrays having mismatch (MM) probe pairs and perfect match (PM) probe pairs. Image data for a plurality of scanned microarrays is stored in a database along with a set of microarray parameters which includes one or more image processing metrics for quality control of the microarray and a pass/fail status of the microarray as determined by these metrics. The user can search the database records according to one or more microarray parameters. The image processing metrics include algorithms for removing local background effects from the probe measurements by determining a model for estimated background using PM probe values. Other image processing metrics utilize a modified Robust Multi-array Averaging (RMA) applied to PM probes to assign weights to probes for determining overall quality of a microarray.

Abstract: The present invention includes methods of normalizing hybridization reactions that are designed to select normalization control genes, specifically 5?-3?-, and middle portions of the these genes, that hybridize similarly to a probe array and that produce the most consistently linear curve of hybridization signal over a range of normalization control gene segment concentrations. These methods have applicability across a broad spectrum of hybridization formats.

Abstract: In a computer system for analysis of gene expression data, a gene expression database is organized in a hierarchical b-tree according to the descriptive and clinical sample attributes stored in the database. A user submits a query for searching the database and defines attributes on which to filter for each level of the b-tree. A simple search can be employed to arbitrarily group together leaf nodes depending on their attributes. The grouped leaf nodes are used as “control” and “experimental” sample sets. A t-test can be performed to test for statistically significant regulation between the control and experimental sample sets. In one embodiment, the results of the b-tree analysis are organized as a table of information which may be part of a relational database. The data in the database are encoded according to a three-state scheme based on regulation behavior.

Abstract: The present invention is based on the elucidation of the global changes in gene expression and the identification of toxicity markers in tissues or cells exposed to a known renal toxin. The genes may be used as toxicity markers in drug screening and toxicity assays. The invention includes a database of genes characterized by toxin-induced differential expression that is designed for use with microarrays and other solid-phase probes.

Abstract: The present invention includes methods of identifying genes whose expression level is invariant among cell or tissue types. The methods of the invention can be used in the diagnosis of disease, in quality control in evaluating external data or databases, and in normalization of external data for comparative purposes. The genes of the invention can be used to produce microarrays that generate data with improved reliability.

Abstract: The present invention is based on the elucidation of the global changes in gene expression and the identification of toxicity markers in tissues or cells exposed to a known cardiotoxin. The genes may be used as toxicity markers in drug screening and toxicity assays. The invention includes a database of genes characterized by toxin-induced differential expression that is designed for use with microarrays and other solid-phase probes.

Abstract: A method for assessing toxicity and toxicology of a substance is disclosed comprising: exposing a set of at least two genes to the substance; monitoring the response of each gene in the set of genes to the substance; analyzing the variance of the response to the substance for each gene using contrast analysis; constructing a summary score for each gene in the set of genes; performing a logistic regression analysis upon the summary scores; and using the results of the logistic regression analysis to provide a predictive model regarding the toxicity and toxicology of the substance.