# /cluster/home/jill/chuck/mm5/pval/go/bg/kgJillIsoforms.tab 41208, /cluster/home/jill/chuck/mm5/pval/go/bg/kgMrnaGo.tab 92287, /cluster/home/jill/chuck/mm5/pval/go/bg/goKgAncestors.tab 3801, /cluster/home/jill/chuck/mm5/pval/go/bg/mm5.knownGene.out 5087 #a instance list : 68 #b referenced loci : 65 #c annotated loci : 48 #d hyper-geometric : n 48 hgN 14129 #e k hgK Exp k p-value term description 35 7041 23.9 0.000950328 GO:0005488 binding 2 24 0 0.002974 GO:0030100 regulation of endocytosis 4 3552 12 0.00297717 u GO:0016021 integral to membrane 1 1 0 0.00339727 GO:0016034 maleylacetoacetate isomerase activity 8 749 2.5 0.00344096 GO:0016301 kinase activity 4 212 0.7 0.00572286 GO:0016192 vesicle-mediated transport 1 2 0 0.00678323 GO:0000209 protein polyubiquitination 1 2 0 0.00678323 GO:0001786 phosphatidylserine binding 1 2 0 0.00678323 GO:0004020 adenylyl-sulfate kinase activity 1 2 0 0.00678323 GO:0004779 sulfate adenylyltransferase activity 1 2 0 0.00678323 GO:0004781 sulfate adenylyltransferase (ATP) activity 1 2 0 0.00678323 GO:0008429 phosphatidylethanolamine binding 3 117 0.3 0.00730023 GO:0006897 endocytosis 1 1922 6.5 0.00759 u GO:0007166 cell surface receptor linked signal transduction 1 3 0 0.0101579 GO:0004652 polynucleotide adenylyltransferase activity 1 3 0 0.0101579 GO:0042147 retrograde transport, endosome to Golgi 1 3 0 0.0101579 GO:0043149 stress fiber formation 1 3 0 0.0101579 GO:0045806 negative regulation of endocytosis 1 3 0 0.0101579 GO:0048041 focal adhesion formation 3 139 0.4 0.01167 GO:0030695 GTPase regulator activity 2 49 0.1 0.0120067 GO:0051049 regulation of transport 28 5837 19.8 0.0127408 GO:0008152 metabolism 27 5553 18.8 0.0127428 GO:0005622 intracellular 1 4 0 0.0135214 GO:0000103 sulfate assimilation 1 4 0 0.0135214 GO:0003997 acyl-CoA oxidase activity 1 4 0 0.0135214 GO:0006791 sulfur utilization 1 4 0 0.0135214 GO:0016730 oxidoreductase activity, acting on iron-sulfur proteins as donors 1 5 0 0.0168737 GO:0004287 prolyl oligopeptidase activity 1 5 0 0.0168737 GO:0006572 tyrosine catabolism 1 5 0 0.0168737 GO:0006910 phagocytosis, recognition 1 5 0 0.0168737 GO:0008717 D-alanyl-D-alanine endopeptidase activity 1 5 0 0.0168737 GO:0017137 Rab interactor activity 13 2064 7 0.0175966 GO:0005515 protein binding 36 8414 28.5 0.0187009 GO:0007582 physiological process 1 6 0 0.0202148 GO:0001725 stress fiber 1 6 0 0.0202148 GO:0006559 phenylalanine catabolism 1 6 0 0.0202148 GO:0051051 negative regulation of transport 1 7 0 0.0235448 GO:0006558 L-phenylalanine metabolism 1 7 0 0.0235448 GO:0009074 aromatic amino acid family catabolism 1 7 0 0.0235448 GO:0045444 adipocyte differentiation 1 7 0 0.0235448 GO:0051017 actin filament bundle formation 3 185 0.6 0.0248294 GO:0006396 RNA processing 8 1067 3.6 0.0260481 GO:0005524 ATP binding 1 8 0 0.0268637 GO:0006635 fatty acid beta-oxidation 1 8 0 0.0268637 GO:0006911 phagocytosis, engulfment 1 8 0 0.0268637 GO:0019905 syntaxin binding 8 1078 3.6 0.0274931 GO:0030554 adenyl nucleotide binding 9 4555 15.4 0.0282354 u GO:0016020 membrane 4 345 1.1 0.0292724 GO:0004674 protein serine/threonine kinase activity 3 2359 8 0.0301639 u GO:0004872 receptor activity 1 9 0 0.0301716 GO:0000086 G2/M transition of mitotic cell cycle 1 9 0 0.0301716 GO:0000781 chromosome, telomeric region 1 9 0 0.0301716 GO:0007004 telomerase-dependent telomere maintenance 1 9 0 0.0301716 GO:0009618 response to pathogenic bacteria 1 9 0 0.0301716 GO:0016634 oxidoreductase activity, acting on the CH-CH group of donors, oxygen as acceptor 1 9 0 0.0301716 GO:0019439 aromatic compound catabolism 4 350 1.1 0.0306377 GO:0006629 lipid metabolism 22 4537 15.4 0.0322107 GO:0003824 catalytic activity 1 10 0 0.0334685 GO:0005178 integrin binding 1 10 0 0.0334685 GO:0005913 cell-cell adherens junction 1 10 0 0.0334685 GO:0016358 dendrite morphogenesis 1 11 0 0.0367544 GO:0000149 SNARE binding 1 11 0 0.0367544 GO:0004602 glutathione peroxidase activity 1 11 0 0.0367544 GO:0005158 insulin receptor binding 1 11 0 0.0367544 GO:0005802 Golgi trans face 1 11 0 0.0367544 GO:0008645 hexose transport 1 11 0 0.0367544 GO:0015749 monosaccharide transport 1 11 0 0.0367544 GO:0015758 glucose transport 2 92 0.3 0.0389811 GO:0005083 small GTPase regulatory/interacting protein activity 1 12 0 0.0400293 GO:0004179 membrane alanyl aminopeptidase activity 1 12 0 0.0400293 GO:0006570 tyrosine metabolism 1 12 0 0.0400293 GO:0016284 alanine aminopeptidase activity 1 12 0 0.0400293 GO:0050764 regulation of phagocytosis 1 12 0 0.0400293 GO:0050766 positive regulation of phagocytosis 8 1161 3.9 0.0402619 GO:0006464 protein modification 2 97 0.3 0.042899 GO:0006397 mRNA processing 1 13 0 0.0432934 GO:0016197 endosome transport 1 13 0 0.0432934 GO:0019395 fatty acid oxidation 1 13 0 0.0432934 GO:0045121 lipid raft 6 771 2.6 0.0452049 GO:0016772 transferase activity, transferring phosphorus-containing groups 5 2958 10 0.0453734 u GO:0004871 signal transducer activity 11 1874 6.3 0.0463223 GO:0046872 metal ion binding 1 14 0 0.0465466 GO:0000723 telomere maintenance 1 14 0 0.0465466 GO:0005924 cell-substrate adherens junction 1 14 0 0.0465466 GO:0045807 positive regulation of endocytosis 1 14 0 0.0465466 GO:0046777 autophosphorylation 3 238 0.8 0.0468853 GO:0016070 RNA metabolism 5 586 1.9 0.0477275 GO:0016773 phosphotransferase activity, alcohol group as acceptor 1 15 0 0.0497889 GO:0004722 protein serine/threonine phosphatase activity 1 15 0 0.0497889 GO:0008286 insulin receptor signaling pathway 2 106 0.3 0.0503034 GO:0016071 mRNA metabolism 1 16 0 0.0530205 GO:0006289 nucleotide-excision repair 1 16 0 0.0530205 GO:0030055 cell-matrix junction 1 17 0 0.0562413 GO:0007032 endosome organization and biogenesis 1 18 0 0.0594513 GO:0007015 actin filament organization 1 18 0 0.0594513 GO:0051050 positive regulation of transport 3 264 0.8 0.0603177 GO:0016567 protein ubiquitination 2 118 0.4 0.0608315 GO:0000278 mitotic cell cycle 2 119 0.4 0.0617406 GO:0007243 protein kinase cascade 3 268 0.9 0.0625297 GO:0000151 ubiquitin ligase complex 1 19 0 0.0626507 GO:0009072 aromatic amino acid family metabolism 1 20 0 0.0658394 GO:0006909 phagocytosis 1 21 0 0.0690175 GO:0000082 G1/S transition of mitotic cell cycle 1 21 0 0.0690175 GO:0008287 protein serine/threonine phosphatase complex 1 21 0 0.0690175 GO:0043087 regulation of GTPase activity 1 22 0 0.072185 GO:0004364 glutathione transferase activity 1 22 0 0.072185 GO:0019901 protein kinase binding 1 23 0 0.075342 GO:0005905 coated pit 1 23 0 0.075342 GO:0009063 amino acid catabolism 5 669 2.2 0.0754309 GO:0006793 phosphorus metabolism 5 669 2.2 0.0754309 GO:0006796 phosphate metabolism 5 2728 9.2 0.0770397 u GO:0007165 signal transduction 2 136 0.4 0.0778811 GO:0016779 nucleotidyltransferase activity 1 24 0 0.0784884 GO:0007338 fertilization (sensu Animalia) 1 24 0 0.0784884 GO:0009566 fertilization 1 24 0 0.0784884 GO:0019900 kinase binding 1 25 0 0.0816243 GO:0004114 3',5'-cyclic-nucleotide phosphodiesterase activity 1 25 0 0.0816243 GO:0007249 I-kappaB kinase/NF-kappaB cascade 1 25 0 0.0816243 GO:0009617 response to bacteria 2 141 0.4 0.0828583 GO:0000287 magnesium ion binding 3 307 1 0.0860199 GO:0004842 ubiquitin-protein ligase activity 4 496 1.6 0.0871213 GO:0004672 protein kinase activity 8 1366 4.6 0.0875294 GO:0017076 purine nucleotide binding 1 27 0 0.0878649 GO:0004112 cyclic-nucleotide phosphodiesterase activity 1 27 0 0.0878649 GO:0008643 carbohydrate transport 1 27 0 0.0878649 GO:0047394 glycerophosphoinositol inositolphosphodiesterase activity 8 1374 4.6 0.0898572 GO:0000166 nucleotide binding 1 28 0 0.0909696 GO:0004177 aminopeptidase activity 1 28 0 0.0909696 GO:0016627 oxidoreductase activity, acting on the CH-CH group of donors 2 149 0.5 0.0910198 GO:0006974 response to DNA damage stimulus 4 509 1.7 0.0936675 GO:0006468 protein amino acid phosphorylation 1 29 0 0.094064 GO:0009310 amine catabolism 4 514 1.7 0.0962472 GO:0005856 cytoskeleton 4 517 1.7 0.0978114 GO:0006950 response to stress 12 2384 8 0.0984894 GO:0019538 protein metabolism 3 326 1.1 0.0986525 GO:0016881 acid-D-amino acid ligase activity 2 157 0.5 0.0994091 GO:0009719 response to endogenous stimulus 8 1415 4.8 0.102366 GO:0007275 development 9 1656 5.6 0.102792 GO:0006810 transport 1 32 0.1 0.103285 GO:0005912 adherens junction 1 32 0.1 0.103285 GO:0016684 oxidoreductase activity, acting on peroxide as acceptor 1 34 0.1 0.109382 GO:0008203 cholesterol metabolism 1 34 0.1 0.109382 GO:0016859 cis-trans isomerase activity 13 2707 9.1 0.114916 GO:0005737 cytoplasm 7 1221 4.1 0.116778 GO:0046914 transition metal ion binding 1 37 0.1 0.11845 GO:0005319 lipid transporter activity 4 559 1.8 0.120954 GO:0016310 phosphorylation 1 38 0.1 0.121453 GO:0016125 sterol metabolism 1 38 0.1 0.121453 GO:0016765 transferase activity, transferring alkyl or aryl (other than methyl) groups 3 360 1.2 0.123004 GO:0016879 ligase activity, forming carbon-nitrogen bonds 1 39 0.1 0.124446 GO:0005543 phospholipid binding 7 3170 10.7 0.126047 u GO:0007154 cell communication 3 368 1.2 0.129034 GO:0006512 ubiquitin cycle 5 797 2.7 0.132178 GO:0009056 catabolism 1 42 0.1 0.133364 GO:0030145 manganese ion binding 3 375 1.2 0.134396 GO:0003723 RNA binding 1 43 0.1 0.136317 GO:0006790 sulfur metabolism 3 384 1.3 0.141406 GO:0030234 enzyme regulator activity 3 390 1.3 0.146148 GO:0007155 cell adhesion 1 48 0.1 0.150935 GO:0008235 metalloexopeptidase activity 1 48 0.1 0.150935 GO:0009897 external side of plasma membrane 1 48 0.1 0.150935 GO:0019897 extrinsic to plasma membrane 2 203 0.6 0.151233 GO:0000003 reproduction 2 203 0.6 0.151233 GO:0019953 sexual reproduction 1 49 0.1 0.153829 GO:0019898 extrinsic to membrane 1 50 0.1 0.156714 GO:0050790 regulation of enzyme activity 1 51 0.1 0.159589 GO:0005615 extracellular space 1 51 0.1 0.159589 GO:0005941 unlocalized 1 51 0.1 0.159589 GO:0016042 lipid catabolism 6 1095 3.7 0.164813 GO:0008270 zinc ion binding 1 53 0.1 0.16531 GO:0006869 lipid transport 1 53 0.1 0.16531 GO:0019899 enzyme binding 4 632 2.1 0.166204 GO:0005739 mitochondrion 1 54 0.1 0.168156 GO:0000375 RNA splicing, via transesterification reactions 1 54 0.1 0.168156 GO:0000377 RNA splicing, via transesterification reactions with bulged adenosine as nucleophile 1 54 0.1 0.168156 GO:0000398 nuclear mRNA splicing, via spliceosome 1 54 0.1 0.168156 GO:0005777 peroxisome 1 54 0.1 0.168156 GO:0042579 microbody 1 55 0.1 0.170993 GO:0007160 cell-matrix adhesion 2 222 0.7 0.173983 GO:0008092 cytoskeletal protein binding 7 1372 4.6 0.180259 GO:0016740 transferase activity 1 59 0.2 0.182246 GO:0008081 phosphoric diester hydrolase activity 1 884 3 0.188637 u GO:0050874 organismal physiological process 1 62 0.2 0.190588 GO:0005096 GTPase activator activity 1 63 0.2 0.19335 GO:0030036 actin cytoskeleton organization and biogenesis 1 65 0.2 0.198846 GO:0015293 symporter activity 2 243 0.8 0.199735 GO:0042578 phosphoric ester hydrolase activity 2 244 0.8 0.200974 GO:0006996 organelle organization and biogenesis 1 67 0.2 0.204305 GO:0008380 RNA splicing 1 67 0.2 0.204305 GO:0030029 actin filament-based process 3 460 1.5 0.204956 GO:0016874 ligase activity 1 70 0.2 0.212426 GO:0006816 calcium ion transport 1 73 0.2 0.220466 GO:0005875 microtubule associated complex 1 74 0.2 0.223128 GO:0001501 skeletal development 1 74 0.2 0.223128 GO:0005516 calmodulin binding 2 262 0.8 0.223421 GO:0019752 carboxylic acid metabolism 1 75 0.2 0.225781 GO:0007169 transmembrane receptor protein tyrosine kinase signaling pathway 2 265 0.9 0.227185 GO:0006082 organic acid metabolism 1 79 0.2 0.236305 GO:0007517 muscle development 2 1147 3.8 0.240844 u GO:0005215 transporter activity 1 82 0.2 0.244106 GO:0008202 steroid metabolism 1 82 0.2 0.244106 GO:0009986 cell surface 2 280 0.9 0.246072 GO:0005794 Golgi apparatus 1 83 0.2 0.246689 GO:0008238 exopeptidase activity 1 776 2.6 0.251261 u GO:0030528 transcription regulator activity 2 286 0.9 0.25365 GO:0007028 cytoplasm organization and biogenesis 1 86 0.2 0.254386 GO:0006725 aromatic compound metabolism 8 1795 6 0.26029 GO:0016787 hydrolase activity 2 294 0.9 0.263766 GO:0030154 cell differentiation 1 90 0.3 0.26453 GO:0008047 enzyme activator activity 1 92 0.3 0.26955 GO:0006631 fatty acid metabolism 1 95 0.3 0.277019 GO:0007283 spermatogenesis 1 95 0.3 0.277019 GO:0048232 male gamete generation 1 96 0.3 0.279492 GO:0005911 intercellular junction 1 723 2.4 0.287857 u GO:0005576 extracellular 5 1058 3.5 0.289128 GO:0050896 response to stimulus 1 102 0.3 0.294155 GO:0019866 inner membrane 2 327 1.1 0.30548 GO:0005783 endoplasmic reticulum 1 110 0.3 0.313253 GO:0006470 protein amino acid dephosphorylation 1 110 0.3 0.313253 GO:0015674 di-, tri-valent inorganic cation transport 1 111 0.3 0.315605 GO:0016327 apicolateral plasma membrane 3 582 1.9 0.316953 GO:0016043 cell organization and biogenesis 1 112 0.3 0.317948 GO:0016311 dephosphorylation 2 337 1.1 0.318067 GO:0006118 electron transport 3 590 2 0.324478 GO:0006508 proteolysis and peptidolysis 11 2750 9.3 0.325419 GO:0008151 cell growth and/or maintenance 3 594 2 0.328242 GO:0016788 hydrolase activity, acting on ester bonds 1 118 0.4 0.331845 GO:0007167 enzyme linked receptor protein signaling pathway 3 599 2 0.332948 GO:0016491 oxidoreductase activity 1 119 0.4 0.334134 GO:0030054 cell junction 1 121 0.4 0.338689 GO:0016853 isomerase activity 3 610 2 0.343301 GO:0030163 protein catabolism 2 358 1.2 0.344336 GO:0015031 protein transport 3 613 2 0.346124 GO:0009057 macromolecule catabolism 1 125 0.4 0.347708 GO:0006281 DNA repair 18 5831 19.8 0.353222 u GO:0009987 cellular process 1 128 0.4 0.354393 GO:0004721 phosphoprotein phosphatase activity 3 622 2.1 0.354589 GO:0008233 peptidase activity 1 130 0.4 0.358812 GO:0015629 actin cytoskeleton 1 131 0.4 0.36101 GO:0003774 motor activity 1 132 0.4 0.363201 GO:0006520 amino acid metabolism 3 634 2.1 0.36586 GO:0005886 plasma membrane 1 625 2.1 0.366734 u GO:0005198 structural molecule activity 1 620 2.1 0.371164 u GO:0006811 ion transport 1 138 0.4 0.376195 GO:0015630 microtubule cytoskeleton 1 596 2 0.392983 u GO:0003700 transcription factor activity 8 2048 6.9 0.394097 GO:0050789 regulation of biological process 1 148 0.5 0.397275 GO:0008289 lipid binding 6 1516 5.1 0.411752 GO:0006350 transcription 1 157 0.5 0.41565 GO:0004252 serine-type endopeptidase activity 9 2374 8 0.416999 GO:0006139 nucleobase, nucleoside, nucleotide and nucleic acid metabolism 1 158 0.5 0.417658 GO:0008237 metallopeptidase activity 2 879 2.9 0.418782 u GO:0009605 response to external stimulus 1 159 0.5 0.419659 GO:0006066 alcohol metabolism 1 160 0.5 0.421653 GO:0003779 actin binding 1 161 0.5 0.42364 GO:0015291 porter activity 3 698 2.3 0.425371 GO:0009887 organogenesis 1 162 0.5 0.425621 GO:0015290 electrochemical potential-driven transporter activity 8 2672 9 0.430278 u GO:0003676 nucleic acid binding 1 166 0.5 0.433477 GO:0006457 protein folding 2 433 1.4 0.435158 GO:0005102 receptor binding 1 167 0.5 0.435424 GO:0006519 amino acid and derivative metabolism 1 169 0.5 0.439299 GO:0008236 serine-type peptidase activity 1 178 0.6 0.456419 GO:0007276 gametogenesis 2 456 1.5 0.461746 GO:0004175 endopeptidase activity 1 181 0.6 0.462011 GO:0007001 chromosome organization and biogenesis (sensu Eukarya) 1 181 0.6 0.462011 GO:0009308 amine metabolism 32 9173 31.1 0.46538 GO:0005623 cell 1 187 0.6 0.473026 GO:0006997 nuclear organization and biogenesis 1 187 0.6 0.473026 GO:0016791 phosphoric monoester hydrolase activity 1 505 1.7 0.484027 u GO:0006259 DNA metabolism 1 200 0.6 0.49614 GO:0005829 cytosol 2 491 1.6 0.500833 GO:0007049 cell cycle 1 204 0.6 0.50305 GO:0007010 cytoskeleton organization and biogenesis 11 3131 10.6 0.506004 GO:0050875 cellular physiological process 2 496 1.6 0.506274 GO:0050794 regulation of cellular process 2 500 1.6 0.510599 GO:0005509 calcium ion binding 1 480 1.6 0.511265 u GO:0006952 defense response 1 209 0.7 0.511558 GO:0005694 chromosome 1 211 0.7 0.514921 GO:0004518 nuclease activity 5 1393 4.7 0.518586 GO:0006355 regulation of transcription, DNA-dependent 5 1606 5.4 0.531687 u GO:0050791 regulation of physiological process 5 1604 5.4 0.532934 u GO:0003677 DNA binding 5 1417 4.8 0.534346 GO:0006351 transcription, DNA-dependent 3 822 2.7 0.534759 GO:0009653 morphogenesis 1 235 0.7 0.553549 GO:0009613 response to pest/pathogen/parasite 5 1452 4.9 0.556947 GO:0045449 regulation of transcription 5 1564 5.3 0.557993 u GO:0019222 regulation of metabolism 5 1458 4.9 0.560773 GO:0019219 regulation of nucleobase, nucleoside, nucleotide and nucleic acid metabolism 9 2670 9 0.577573 u GO:0005634 nucleus 1 420 1.4 0.580162 u GO:0006955 immune response 1 259 0.8 0.58916 GO:0007399 neurogenesis 2 578 1.9 0.590047 GO:0009607 response to biotic stimulus 1 399 1.3 0.605317 u GO:0006812 cation transport 2 660 2.2 0.609812 u GO:0007242 intracellular signaling cascade 1 276 0.9 0.612686 GO:0030529 ribonucleoprotein complex 1 293 0.9 0.634891 GO:0005975 carbohydrate metabolism 2 619 2.1 0.648232 u GO:0008283 cell proliferation 1 321 1 0.70209 u GO:0046907 intracellular transport 1 311 1 0.714726 u GO:0005386 carrier activity 1 297 1 0.732439 u GO:0030001 metal ion transport