g:Profiler--a web-based toolset for functional profiling of gene lists from large-scale experiments.

@article{citeulike:1467354, abstract = {g:Profiler (http://biit.cs.ut.ee/gprofiler/) is a public web server for characterising and manipulating gene lists resulting from mining high-throughput genomic data. g:Profiler has a simple, user-friendly web interface with powerful visualisation for capturing Gene Ontology (GO), pathway, or transcription factor binding site enrichments down to individual gene levels. Besides standard multiple testing corrections, a new improved method for estimating the true effect of multiple testing over complex structures like GO has been introduced. Interpreting ranked gene lists is supported from the same interface with very efficient algorithms. Such ordered lists may arise when studying the most significantly affected genes from high-throughput data or genes co-expressed with the query gene. Other important aspects of practical data analysis are supported by modules tightly integrated with g:Profiler. These are: g:Convert for converting between different database identifiers; g:Orth for finding orthologous genes from other species; and g:Sorter for searching a large body of public gene expression data for co-expression. g:Profiler supports 31 different species, and underlying data is updated regularly from sources like the Ensembl database. Bioinformatics communities wishing to integrate with g:Profiler can use alternative simple textual outputs.}, address = {Institute of Computer Science, University of Tartu, Liivi 2, 50409 Tartu, Estonia.}, author = {Reimand, J. and Kull, M. and Peterson, H. and Hansen, J. and Vilo, J. }, citeulike-article-id = {1467354}, doi = {http://dx.doi.org/10.1093/nar/gkm226}, issn = {1362-4962}, journal = {Nucleic Acids Res}, keywords = {gene\_list\_analysis}, month = {July}, number = {Web Server issue}, posted-at = {2007-08-09 11:30:57}, priority = {0}, title = {g:Profiler--a web-based toolset for functional profiling of gene lists from large-scale experiments.}, url = {http://dx.doi.org/10.1093/nar/gkm226}, volume = {35}, year = {2007} }

TY - JOUR ID - citeulike:1467354 L3 - citeulike-article-id:1467354 TI - g:Profiler--a web-based toolset for functional profiling of gene lists from large-scale experiments. JF - Nucleic Acids Res VL - 35 IS - Web Server issue AD - Institute of Computer Science, University of Tartu, Liivi 2, 50409 Tartu, Estonia. SN - 1362-4962 N2 - g:Profiler (http://biit.cs.ut.ee/gprofiler/) is a public web server for characterising and manipulating gene lists resulting from mining high-throughput genomic data. g:Profiler has a simple, user-friendly web interface with powerful visualisation for capturing Gene Ontology (GO), pathway, or transcription factor binding site enrichments down to individual gene levels. Besides standard multiple testing corrections, a new improved method for estimating the true effect of multiple testing over complex structures like GO has been introduced. Interpreting ranked gene lists is supported from the same interface with very efficient algorithms. Such ordered lists may arise when studying the most significantly affected genes from high-throughput data or genes co-expressed with the query gene. Other important aspects of practical data analysis are supported by modules tightly integrated with g:Profiler. These are: g:Convert for converting between different database identifiers; g:Orth for finding orthologous genes from other species; and g:Sorter for searching a large body of public gene expression data for co-expression. g:Profiler supports 31 different species, and underlying data is updated regularly from sources like the Ensembl database. Bioinformatics communities wishing to integrate with g:Profiler can use alternative simple textual outputs. KW - gene_list_analysis AU - Reimand, J AU - Kull, M AU - Peterson, H AU - Hansen, J AU - Vilo, J PY - 2007/07/01/ UR - http://dx.doi.org/10.1093/nar/gkm226 ER -