Damage Survival Pathways Table 2. Categories of Gene Ontology enrichment within the validated MMS survival genes. Gene Ontology enrichment Biological Process Adjusted P-value ,0.001 ,0.001 ,0.001 ,0.001 ,0.001 ,0.001 ,0.001 ,0.001 ,0.001 ,0.001 ,0.001 ,0.001 0.001 0.014 0.018 0.034 0.049 ,0.001 ,0.001 ,0.001 ,0.001 0.003 0.003 ,0.001 ,0.001 ,0.001 ,0.001 ,0.001 ,0.001 ,0.001 ,0.001 ,0.001 0.003 0.012 0.015 0.032 0.038 Molecular Function Adjusted P-value Cellular Component Adjusted P-value GO Attribute 0006139: nucleobase, nucleoside, nucleotide and nucleic acid metabolic process 0006351: transcription, DNA-dependent 0032774: RNA biosynthetic process 0016070: RNA metabolic process 0045449: regulation of transcription 0065004: protein-DNA complex assembly 0016043: cellular component organization and biogenesis 0051252: regulation of RNA metabolic process 0006367: transcription initiation from RNA polymerase II promoter 0006355: regulation of transcription, DNA-dependent 0065003: macromolecular complex assembly 0008283: cell proliferation 0035080: heat shock-mediated polytene chromosome puffing 0006911: phagocytosis, engulfment 0045165: cell fate commitment 0030154: cell differentiation 0006259: DNA metabolic process GO Attribute 0030528: transcription regulator activity 0003676: nucleic acid binding 0016251: general RNA polymerase II transcription factor activity 0003702: RNA polymerase II transcription factor activity 0005515: protein binding 0043565: sequence-specific DNA binding GO Attribute 0005634: nucleus 0005654: nucleoplasm 0043227: membrane-bounded organelle 0031981: nuclear lumen 0016591: DNA-directed RNA polymerase II, holoenzyme 0031974: membrane-enclosed lumen 0043234: protein complex 0032991: macromolecular complex 0005667: transcription factor complex 0000119: mediator complex 0008540: proteasome regulatory particle, base subcomplex 0005665: DNA-directed RNA polymerase II, core complex 0005675: holo TFIIH complex 0000123: histone acetyltransferase complex An examination of the 202 validated screen MMS survival genes for category enrichment within Gene Ontologies; Biological Process, with 46 genes having no functional annotation; Molecular Function, with 40 genes having no functional annotation; Cellular Component, with 68 genes having no cellular component annotation, using FuncAssociate. doi:10.1371/journal.pgen.1000527.t002 PLoS Genetics | www.plosgenetics.org 5 June 2009 | Volume 5 | Issue 6 | e1000527