Bioinformatics enrichment tools: paths toward the comprehensive functional analysis of large gene lists Export

@article{citeulike:3721754, abstract = {Functional analysis of large gene lists, derived in most cases from emerging high-throughput genomic, proteomic and bioinformatics scanning approaches, is still a challenging and daunting task. The gene-annotation enrichment analysis is a promising high-throughput strategy that increases the likelihood for investigators to identify biological processes most pertinent to their study. Approximately 68 bioinformatics enrichment tools that are currently available in the community are collected in this survey. Tools are uniquely categorized into three major classes, according to their underlying enrichment algorithms. The comprehensive collections, unique tool classifications and associated questions/issues will provide a more comprehensive and up-to-date view regarding the advantages, pitfalls and recent trends in a simpler tool-class level rather than by a tool-by-tool approach. Thus, the survey will help tool designers/developers and experienced end users understand the underlying algorithms and pertinent details of particular tool categories/tools, enabling them to make the best choices for their particular research interests. 10.1093/nar/gkn923}, author = {Huang, Da W. and Sherman, Brad T. and Lempicki, Richard A.}, citeulike-article-id = {3721754}, citeulike-linkout-0 = {http://dx.doi.org/10.1093/nar/gkn923}, citeulike-linkout-1 = {http://nar.oxfordjournals.org/content/37/1/1.abstract}, citeulike-linkout-2 = {http://nar.oxfordjournals.org/content/37/1/1.full.pdf}, citeulike-linkout-3 = {http://nar.oxfordjournals.org/cgi/content/abstract/37/1/1?etoc}, citeulike-linkout-4 = {http://view.ncbi.nlm.nih.gov/pubmed/19033363}, citeulike-linkout-5 = {http://www.hubmed.org/display.cgi?uids=19033363}, day = {1}, doi = {10.1093/nar/gkn923}, issn = {1362-4962}, journal = {Nucl. Acids Res.}, month = {January}, number = {1}, pages = {1--13}, posted-at = {2009-08-31 19:29:58}, priority = {4}, title = {Bioinformatics enrichment tools: paths toward the comprehensive functional analysis of large gene lists}, url = {http://dx.doi.org/10.1093/nar/gkn923}, volume = {37}, year = {2009} }

TY - JOUR ID - citeulike:3721754 L3 - citeulike-article-id:3721754 N2 - Functional analysis of large gene lists, derived in most cases from emerging high-throughput genomic, proteomic and bioinformatics scanning approaches, is still a challenging and daunting task. The gene-annotation enrichment analysis is a promising high-throughput strategy that increases the likelihood for investigators to identify biological processes most pertinent to their study. Approximately 68 bioinformatics enrichment tools that are currently available in the community are collected in this survey. Tools are uniquely categorized into three major classes, according to their underlying enrichment algorithms. The comprehensive collections, unique tool classifications and associated questions/issues will provide a more comprehensive and up-to-date view regarding the advantages, pitfalls and recent trends in a simpler tool-class level rather than by a tool-by-tool approach. Thus, the survey will help tool designers/developers and experienced end users understand the underlying algorithms and pertinent details of particular tool categories/tools, enabling them to make the best choices for their particular research interests. 10.1093/nar/gkn923 IS - 1 JF - Nucl. Acids Res. SN - 1362-4962 EP - 13 TI - Bioinformatics enrichment tools: paths toward the comprehensive functional analysis of large gene lists VL - 37 SP - 1 AU - Huang, Da AU - Sherman, Brad AU - Lempicki, Richard PY - 2009/01/01/ UR - http://dx.doi.org/10.1093/nar/gkn923 ER -