Difference between revisions of "Home"
| Line 1: | Line 1: | ||
| − | '''geWorkbench''' (<u>ge</u>nomics <u>Workbench</u>) is a Java-based open-source platform for integrated genomics. Using a component architecture it allows individually developed plug-ins to be configured into complex bioinformatic applications. At present there are more than | + | '''geWorkbench''' (<u>ge</u>nomics <u>Workbench</u>) is a Java-based open-source platform for integrated genomics. Using a component architecture it allows individually developed plug-ins to be configured into complex bioinformatic applications. At present there are more than 50 available [[Plugins|plug-ins]] supporting the visualization and analysis of gene expression and sequence data. Example use cases include: |
* loading data from local or remote data sources. | * loading data from local or remote data sources. | ||
| − | * visualizing gene expression and | + | * visualizing gene expression, molecular interaction networks, protein sequence and protein structure data in a variety of ways. |
* providing access to client- and server-side computational analysis tools such as t-test analysis, hierarchical clustering, self organizing maps, regulatory neworks reconstruction, BLAST searches, pattern/motif discovery, etc. | * providing access to client- and server-side computational analysis tools such as t-test analysis, hierarchical clustering, self organizing maps, regulatory neworks reconstruction, BLAST searches, pattern/motif discovery, etc. | ||
* validating computational hypothesis through the integration of gene and pathway annotation information from curated sources as well as through Gene Ontology enrichment analysis. | * validating computational hypothesis through the integration of gene and pathway annotation information from curated sources as well as through Gene Ontology enrichment analysis. | ||
<br/> | <br/> | ||
| − | geWorkbench is the Bioinformatics platform of [http://magnet.c2b2.columbia.edu MAGNet], the '''National Center for the Multi-scale Analysis of Genomic and Cellular Networks''' (one of the [http://www. | + | geWorkbench is the Bioinformatics platform of [http://magnet.c2b2.columbia.edu MAGNet], the '''National Center for the Multi-scale Analysis of Genomic and Cellular Networks''' (one of the [http://www.ncbcs.org 7 National Centers for Biomedial Computing] funded through the [http://nihroadmap.nih.gov/ NIH Roadmap]). Additionally, geWorkbench is supported by [https://cabig.nci.nih.gov/ caBIG™, NCI's cancer Biomedical Informatics Grid initiative]. |
| + | |||
<br/> | <br/> | ||
| + | End-user and developer support for geWorkbench is provided through the caBIG™ [https://cabig-kc.nci.nih.gov/Molecular/KC/index.php/Main_Page Molecular Analysis Tools Knowledge Center], a component of the caBIG™ [https://cabig.nci.nih.gov/esn/ Enterprise Support Network]. | ||
| + | |||
| + | <!--Many [[Magnet components|more components]] are scheduled for development in the context of the Center's activities.--> | ||
| + | |||
<!-- | <!-- | ||
geWorkbench builds on [http://amdec-bioinfo.cu-genome.org/html/caWorkBench3.htm caWorkbench] (<u>ca</u>ncer <u>Workbench</u>), a project funded by the [http://www.cancer.gov/ National Cancer Institute (NCI)] and the [http://www.amdec.org/ Academic Medical Development Company (AMDeC)]. | geWorkbench builds on [http://amdec-bioinfo.cu-genome.org/html/caWorkBench3.htm caWorkbench] (<u>ca</u>ncer <u>Workbench</u>), a project funded by the [http://www.cancer.gov/ National Cancer Institute (NCI)] and the [http://www.amdec.org/ Academic Medical Development Company (AMDeC)]. | ||
--> | --> | ||
Revision as of 17:02, 8 September 2008
geWorkbench (genomics Workbench) is a Java-based open-source platform for integrated genomics. Using a component architecture it allows individually developed plug-ins to be configured into complex bioinformatic applications. At present there are more than 50 available plug-ins supporting the visualization and analysis of gene expression and sequence data. Example use cases include:
- loading data from local or remote data sources.
- visualizing gene expression, molecular interaction networks, protein sequence and protein structure data in a variety of ways.
- providing access to client- and server-side computational analysis tools such as t-test analysis, hierarchical clustering, self organizing maps, regulatory neworks reconstruction, BLAST searches, pattern/motif discovery, etc.
- validating computational hypothesis through the integration of gene and pathway annotation information from curated sources as well as through Gene Ontology enrichment analysis.
geWorkbench is the Bioinformatics platform of MAGNet, the National Center for the Multi-scale Analysis of Genomic and Cellular Networks (one of the 7 National Centers for Biomedial Computing funded through the NIH Roadmap). Additionally, geWorkbench is supported by caBIG™, NCI's cancer Biomedical Informatics Grid initiative.
End-user and developer support for geWorkbench is provided through the caBIG™ Molecular Analysis Tools Knowledge Center, a component of the caBIG™ Enterprise Support Network.
