Difference between revisions of "Dataanalysis"
From Genome Technology Core (GTC) wiki - Sequencing and Microarray
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| + | {| border="1" | ||
| + | |+ MIT Software | ||
| + | ! Program !! Description !! Platform | ||
| + | |- | ||
| + | ! GSEA | ||
| + | | Determines if a given set of genes shows differences between two biological states || JAVA | ||
| + | |- | ||
| + | ! GeneCluster | ||
| + | |Self-organizing maps | ||
| + | |JAVA, Windows NT | ||
| + | |- | ||
| + | ! Connectivity Map | ||
| + | | Uses pattern-matching algorithms to enable discovery of functional connections between drugs, genes, and diseases | ||
| + | |Web | ||
| + | |- | ||
| + | ! GeneCruiser | ||
| + | | Annotation tool for Affymetrix probes | ||
| + | |Web | ||
| + | |} | ||
| + | |||
{| border="1" | {| border="1" | ||
|+ Free Software from other sources | |+ Free Software from other sources | ||
Latest revision as of 14:10, 2 November 2007
| Program | Description | Platform |
|---|---|---|
| GSEA | Determines if a given set of genes shows differences between two biological states | JAVA |
| GeneCluster | Self-organizing maps | JAVA, Windows NT |
| Connectivity Map | Uses pattern-matching algorithms to enable discovery of functional connections between drugs, genes, and diseases | Web |
| GeneCruiser | Annotation tool for Affymetrix probes | Web |
| Program | Description | Provider | Platform |
|---|---|---|---|
| Array Designer | Tool assisting in primer design for microarray construction | Premier Biosoft International | JAVA |
| ArrayMiner | Set of analysis tools using advanced algorithms to reveal the true structure of gene expression data | Optimal Design, Sprl. | Windows/MacOS |
| ArrayViewer | Identification of statistically significant hybridization signals | National Human Genome Research Institute | JAVA |
| BAGEL | Bayesian Analysis of Gene Expression Levels: a program for the statistical analysis of spotted microarray data. | University of Connecticut | MacOS, Windows, Linux |
| BAMarray | Bayesian Analysis of Variance for Microarrays - detect differentially expressed genes from multigroup microarray data | Case University | Windows, Linux |
| BASE | Microarray database and analysis platform | Lund University | Web |
| Cluster 3.0 | An enhanced version of Mike Eisen's Cluster | University of Tokyo, Japan | UNIX, Linux, MacOS, Windows |
| DNA arrays analysis tools | Hierarchical clustering, Self Organizing Maps and more | Spanish National Cancer Center, Bioinformatics Unit | Web |
| Expression Profiler | Analysis & clustering of gene expression data | European Bioinformatics Institute (EBI) | Web |
| GEDA | Gene expression data analysis and simulation tools, offering a variety of options for processing and analyzing results. | University of Pittsburgh and UPMC | Web |
| GenMAPP | Tools for visualizing data from gene expression experiments in the context of biological pathways. | Conklin lab; Gladstone Institute & the UCSF | Windows |
| GeneX | Gene Expression Database : integrated toolset for data analysis and comparison | National Center for Genome Resources | Windows, Linux, SunOS/Solaris |
| TIGR MultiExperiment Viewer | Analysis and Visualization of Microarray Data | TIGR | JAVA |
| TreeArrange and Treeps | Software for displaying and manipulating hierarchical clustered data | University of Waterloo, Canada | Linux, Unix, Windows |
