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10.1093/nar/gkw957 http://scihub22266oqcxt.onion/10.1093/nar/gkw957 C5389513!5389513!28204549     free     free     free Deprecated: Implicit conversion from float 209.6 to int loses precision in C:\Inetpub\vhosts\kidney.de\httpdocs\pget.php on line 534 Deprecated: Implicit conversion from float 209.6 to int loses precision in C:\Inetpub\vhosts\kidney.de\httpdocs\pget.php on line 534 Deprecated: Implicit conversion from float 209.6 to int loses precision in C:\Inetpub\vhosts\kidney.de\httpdocs\pget.php on line 534 Deprecated: Implicit conversion from float 209.6 to int loses precision in C:\Inetpub\vhosts\kidney.de\httpdocs\pget.php on line 534 Deprecated: Implicit conversion from float 209.6 to int loses precision in C:\Inetpub\vhosts\kidney.de\httpdocs\pget.php on line 534       Nucleic+Acids+Res 2017 ; 45 (4): e20 Nephropedia Template TP {{tp|p=28204549|t=2017. Using predictive specificity to determine when gene set analysis is biologically meaningful |pdf=|usr=}}{{28204549}} gab.com Text Using predictive specificity to determine when gene set analysis is biologically meaningful JO: Nucleic Acids Res http://www.kidney.de/pget.php?&tw=1&pmid=28204549 #FOAvip Gene set analysis, which translates gene lists into enriched functions, is among the most common bioinformatic methods. Yet few would advocate taking the results at face value. Not only is there no agreement on the algorithms themselves, there is no agreement on how to benchmark them. In this paper, we evaluate the robustness and uniqueness of enrichment results as a means of assessing methods even where correctness is unknown. We show that heavily annotated (?multifunctional?) genes are likely to appear in genomics study results and drive the generation of biologically non-specific enrichment results as well as highly fragile significances. By providing a means of determining where enrichment analyses report non-specific and non-robust findings, we are able to assess where we can be confident in their use. We find significant progress in recent bias correction methods for enrichment and provide our own software implementation. Our approach can be readily adapted to any pre-existing package. Twit Text FOAVip Using predictive specificity to determine when gene set analysis is biologically meaningful ????Nucleic Acids Res http://www.kidney.de/pget.php?&tw=1&pmid=28204549 #FOAvip Twit Text # Free Paper on # # # # # LINK http://www.kidney.de/pget.php?&tw=1&pmid=28204549 #FOAvip English Wikipedia <ref>{{Cite pmid|28204549}}</ref> Using predictive specificity to determine when gene set analysis is biologically meaningful #MMPMID28204549 Ballouz S; Pavlidis P; Gillis J Nucleic Acids Res 2017[Feb]; 45 (4): e20 PMID28204549show ga Gene set analysis, which translates gene lists into enriched functions, is among the most common bioinformatic methods. Yet few would advocate taking the results at face value. Not only is there no agreement on the algorithms themselves, there is no agreement on how to benchmark them. In this paper, we evaluate the robustness and uniqueness of enrichment results as a means of assessing methods even where correctness is unknown. We show that heavily annotated (?multifunctional?) genes are likely to appear in genomics study results and drive the generation of biologically non-specific enrichment results as well as highly fragile significances. By providing a means of determining where enrichment analyses report non-specific and non-robust findings, we are able to assess where we can be confident in their use. We find significant progress in recent bias correction methods for enrichment and provide our own software implementation. Our approach can be readily adapted to any pre-existing package. äUsing predictive specificity to determine when gene set analysis is bi(epmc).pdf DeepDyve Pubget Overpricing