Microarray, SAGE and other gene expression data analysis tools
A light-weight multi-method clustering engine for microarray gene-expression data.
Infer a framework of regulatory networks from a large number of gene expression profiles.
Perform automated genetic mapping on a fixed framework map.
A web-based interface to detect outlying genechips with extreme studentized deviate tests.
A software tool to characterize Affymetrix GeneChip expression arrays with respect to SNPs.
Explore redefined Affymetrix microarray data.
Conduct protein classification, expression analysis and SNP function screening.
Identify co-expressed genes based on n a large Arabidopsis thaliana microarray data set.
Automatically apply of complex analyses to microarray data ranging from single slides to large data sets including replicates and dye-swaps.
Integrates various forms of microarray data from diverse annotation and primary data sources.
Predict functional associations between genes based on microarray expression data.
Use a web-based Linux platform to implement DNA microarray data analysis programs.
Map and visualize microarray gene-expression data for integrated biological pathway resources using Scalable Vector Graphics (SVG).
Analyze gene expression and aCGH data.
Suite of web tools for the functional profiling of genome scale experiments.
A useful tool for DNA methylation analysis.
Compare temporal gene expression pattern from different samples.
Software tool for bicluster detection and visualization.
A visualization technique to simultaneously represent all biclusters.
Perform comprehensive analysis of microarray data.
Analyze microarray and promoter data to infer transcriptional regulatory network.
Normalize array comparative genomic hybridization (aCGH) data.
A web-based tool that applies a number of popular algorithms to a single array CGH profile entered by the user.
A program for locating copy number variations in a single genome.
Find the conserved Transcription Factor Binding Sites (TFBS) in the promoter regions of the genes of given Human genes and the corresponding Mouse homolog.
Conduct multi-facet analysis of composite regulatory signature by transcription factors and microRNA on gene expression.
Understand the relationship between pathways and gene expression.
Retrieve annotation information from online databases such as NetAffx and Gene Ontology and organizing such information into easily interpretable tabular format outputs.
Uses information in the Medline database for the biological interpretation of microarray data.
Perform automated comprehensive analyses of promoter regulatory motifs and the effect they exert on mRNA expression profiles.
A tool that takes your data on differential gene expression (i.e. SAGE or microarray data) and predicts additional molecules which may be of importance.
Visualization, normalization and significance testing for pathogen-detection microarray data.
Find information about alternative splicing events.
Search for annotated information about gene structure, function and expression, and alternative splicing events.
Perform high throughput annotation of expressed sequence tags (ESTs).
A comprehensive workflow system for EST data management and analysis.
Clean and annotate expressed sequence tag (EST) sequences.
A data integration and visualization tool to facilitate data analyses, visual validation, and hypothesis generation.
An easy-to-use, stand-alone application that allows rapid and powerful microarray data analysis in the context of biological pathways.
Use this fully integrated platform for processing microarray data.
Analyze microarray gene expression and other functional genomics-related data.
An integrated feature-based function prediction server for vertebrate proteomes.
Search for gene ontology (GO) terms for a list of genes.
Integration of functional annotation, regulatory motifs and interaction data with microarray experiments.
A web-based integrated gene set analysis tool covering previously reported parametric and non-parametric models.
Perform EST-based gene expression profiling and analysis.
Interpret genome-wide DNA copy number changes identified by array-based comparative genomic hybridization.
A user-friendly toolbox for analysis of large-scale gene expression data.
Perform biclustering of microarray data.
A powerful alternative search engine for the Gene Expression Omnibus.
Conduct comprehensive analysis of microarray data.
Analyze gene expression patterns from microarray data.
Identify functions and processes regulated in microarray and SAGE experiments.
A web-based software toolkit for Gene Ontology enrichment analysis.
Allowssimulation of non-multiplicative effects and two-way interaction effects.
Visualize and analyze gene expression data in the context of biological pathways.
Annotate microarray data using information from public databases.
Perform automated data analysis from gene expression experiments on a number of different platforms.
Analyze a set of genes against any chosen reference set or against all genes.
To visualize and analyze gene expression data, and integrate clustering, gene annotation, and sequence information.
Produce gene expression visualizations.
Use a suite of algorithms and tools for the analysis of gene expression data and the discovery of cis-regulatory sequence elements.
A web-based environment for the analysis of Array CGH and gene expression which includes functional profiling.
Annotate crude EST (expressed sequence tag) specifically dedicated to comparative mapping approaches.
Analyze and interpret high-throughput gene expression data from prokaryotes.
Compare and annotate user-defined pairs of microarray platforms based on diverse types of genome annotation data (across different species) collected from multiple sources.
A web-based tool for visualizing experimental data in the context of biological pathways.
Store, download and export MIAME-compliant microarray experiments in minutes rather than hours.
Infer transcriptional regulation relationships from RNA expression values.
Identify differentially expressed genes.
A modular open-source application for microarray workflow and integrative datamining.
A novel normalization method based on the GC content of probes for two-color tiling arrays.
Data mining and visualization tool for rapid analysis of diverse high-throughput biological data.
Identify differentially expressed genes from two-channel microarray data.
To create a global gene-expression profile across all areas of biology by integrating the annotations of the Gene Ontology (GO) Project with the free software package GenMAPP.
An interactive R-based tool for two-colour microarray analysis.
Allows users to rapidly and directly analyze genomic datasets spanning multiple genomic experiments.
Conduct statistical analysis to microarray data.
A web-based tool for searching and large scale retrieval of public microarray data.
Combine the results of multiple gene expression studies.
Search the largest public repository for high-throughput gene expression data.
Analyze large amounts of ESTs or cDNAs from mammalia and fungi.
Web platform for cluster and cross-species analysis of microarray data.
A web server for identifying Gene Ontology conceptual clusters.
Use a suite of tools to analyze microarray data and perform genomic and proteomic annotations.
A tool for statistical analysis and visualization of high-throughout biological data using Gene Ontology.
Gain insight the evolutionary history of organisms via expressed sequence tag analysis.
Find information about alignment of probe sequences from five Affymetrix expression microarrays.
A tool to aid high-throughput phylogenetic analysis.
Visualize microarray data via heat maps.
Filter common literature, biological terms and pathway information.
Identify key molecular functions or annotation categories and the relationship between them in large-scale expression profiles.
Interpret gene expression data obtained from microarray experiments.
Visualize high-throughput microarray gene expression data on biological pathways.
Perform analysis on gene and protein expression data.
Application for the mapping of prokaryotic genes and the corresponding proteins to common gene regulatory and metabolic networks.
A web tool for profiling the complex functionality of gene groups identified from high-throughput data.
Analyze DNA microarray data.
Use motif-based regression method to analyze microarray data.
Find relative expression of a given gene in normal and malignant tissues throughout the human body.
Map experimental tags in serial analysis of gene expression.
Store, annotate, view, analyze, and share microarray data.
Analyze tissue/tumor-specific expression patterns in human and mouse transcriptomes.
Use the t-test to score changes in the average gene expression activity of predefined groups of genes.
Analyze and visualize gene regulatory networks that combines encyclopedic information on signal transduction pathway.
A comprehensive toolbox for storing, analyzing and integrating microarray data and related genotype and phenotype data.
Interpret microarray gene expression data.
Predict gene function using gene expression data.
Perform gene ontology microarray analysis by drawing Euler/Venn diagrams.
Cluster and interpret gene expression microarray data.
A visualization plugin using an extended permutation matrix for exploratory data analysis of multi-experiment microarray studies.
Perform statistical analysis on human SAGE data.
Perform cross-platform microarray analysis
Search and analyze comprehensive genetic information of a set of genes.
Designed to map millions of short reads, emerged by next-generation sequencing technology, back to the reference genomes, and carry out post-analysis.
Use to analyze spatial-temporal gene expression information.
Reveal information about the complex latent relationships in experimental data sets.
Identify the conditions that affect the expression of a gene or list of genes of yeast regulated in a set of experiments.
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