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A comparative account of microRNA resources, feature-validations and application-based categorizations

GeneCodis

Tool nameGeneCodis
URLhttp://genecodis.dacya.ucm.es
Important featuresBioinformatic resource to assist in the interpretational studies of high throughput experiments and functional interpretation of gene lists by integrating biological data from many sources.
CitationsNogales-Cadenas R, Carmona-Saez P, Vazquez M, Vicente C, Yang X, Tirado F, Carazo JM, Pascual-Montano A. GeneCodis: interpreting gene lists through enrichment analysis and integration of diverse biological information. Nucleic Acids Res. 2009 Jul;37(Web Server issue):W317-22. Epub 2009 May 22. PubMed PMID: 19465387; PubMed Central PMCID: PMC2703901.
Year of publication2007
Rank by usage frequency100
CommentsThe application is freely available.
FunctionEXPERIMENTAL data analysis, BROAD SCOPE RESOURCES: miscellanous, http://genecodis.dacya.ucm.es , Bioinformatic resource to assist in the interpretational studies of high throughput experiments and functional interpretation of gene lists by integrating biological data from many sources. , Nogales-Cadenas R- Carmona-Saez P- Vazquez M- Vicente C- Yang X- Tirado F- Carazo JM- Pascual-Montano A. GeneCodis: interpreting gene lists through enrichment analysis and integration of diverse biological information. Nucleic Acids Res. 2009 Jul;37(Web Server issue):W317-22. Epub 2009 May 22. PubMed PMID: 19465387; PubMed Central PMCID: PMC2703901. , 2007, 100, The application is freely available., Online, I. SPECIES SUPPORTED INCLUDE: A. thaliana- B. taurus- C. albicans- C. elegans- E. coli- D. rerio- D. melanogaster- G. gallus- H. sapiens- L.major- M. musculus- R. norvegicus- S. cerevisiae- S. pombe- T. brucei and V. Cholerae II. QUERY OR INPUT DATA: 1. Select the organism 2. Select the annotations:GO Biological Process- GO Cellular Component- GOSlim Process- GOSlim Function- GOSlim Component- KEGG Pathways- InterPro Motifs - MicroRNA- Transcription Factors- 3. Enter list of genes or upload file 4. Advanced options: microarray reference- own annotations III. OUTPUT DATA: depends on the type of analysis chosen. Details of co-occuring annotations in a a given set of genes or singular annotation results. Further- graphical representation of results is provided. , Predict whether microRNA:mRNA interaction will take place at a specified concentration., 4.2 EXPERIMENTAL aids; predicting mRNA-microRNA interaction
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