Personal tools

MCL coexpression mm9:466: Difference between revisions

From FANTOM5_SSTAR

Jump to: navigation, search
(Created page with "{{MCL_coexpression_mm9|gostat_on_MCL_coexpression=GO:0003676;nucleic acid binding;0.00530572852107038;212276,104836,53621,65020,67039,56469,212880!GO:0016070;RNA metabolic pro...")
 
No edit summary
Line 1: Line 1:
{{MCL_coexpression_mm9|gostat_on_MCL_coexpression=GO:0003676;nucleic acid binding;0.00530572852107038;212276,104836,53621,65020,67039,56469,212880!GO:0016070;RNA metabolic process;0.00903518597931577;212276,53621,65020,67039,56469,212880!GO:0046914;transition metal ion binding;0.00903518597931577;212276,104836,53621,65020,68916,56469!GO:0010467;gene expression;0.0150623954367083;212276,53621,65020,67039,56469,212880!GO:0043283;biopolymer metabolic process;0.0150623954367083;212276,104836,53621,65020,67039,56469,212880!GO:0008270;zinc ion binding;0.0155505022672948;212276,104836,53621,65020,56469!GO:0006139;nucleobase, nucleoside, nucleotide and nucleic acid metabolic process;0.0155505022672948;212276,53621,65020,67039,56469,212880!GO:0006512;ubiquitin cycle;0.0155505022672948;104836,53621,56469!GO:0043169;cation binding;0.0186580699103838;212276,104836,53621,65020,68916,56469!GO:0046872;metal ion binding;0.0262872557322886;212276,104836,53621,65020,68916,56469!GO:0043167;ion binding;0.0267108832279013;212276,104836,53621,65020,68916,56469!GO:0043170;macromolecule metabolic process;0.036282835004813;212276,104836,53621,65020,67039,56469,212880!GO:0006397;mRNA processing;0.0417523094957805;67039,212880!GO:0030335;positive regulation of cell migration;0.0417523094957805;104836!GO:0007162;negative regulation of cell adhesion;0.0417523094957805;104836!GO:0016071;mRNA metabolic process;0.0417523094957805;67039,212880!GO:0006355;regulation of transcription, DNA-dependent;0.0417523094957805;212276,53621,65020,56469!GO:0051272;positive regulation of cell motility;0.0417523094957805;104836!GO:0040017;positive regulation of locomotion;0.0417523094957805;104836!GO:0006351;transcription, DNA-dependent;0.0417523094957805;212276,53621,65020,56469!GO:0032774;RNA biosynthetic process;0.0417523094957805;212276,53621,65020,56469!GO:0044238;primary metabolic process;0.0417523094957805;212276,104836,53621,65020,67039,56469,212880!GO:0044237;cellular metabolic process;0.0417523094957805;212276,104836,53621,65020,67039,56469,212880!GO:0045449;regulation of transcription;0.0417523094957805;212276,53621,65020,56469!GO:0051539;4 iron, 4 sulfur cluster binding;0.0417523094957805;68916!GO:0019219;regulation of nucleobase, nucleoside, nucleotide and nucleic acid metabolic process;0.0417523094957805;212276,53621,65020,56469!GO:0006350;transcription;0.0417523094957805;212276,53621,65020,56469!GO:0050794;regulation of cellular process;0.0417523094957805;212276,104836,53621,65020,56469!GO:0045807;positive regulation of endocytosis;0.0417523094957805;104836!GO:0016874;ligase activity;0.0417523094957805;104836,53621!GO:0010468;regulation of gene expression;0.0449082443095962;212276,53621,65020,56469!GO:0006396;RNA processing;0.0449082443095962;67039,212880!GO:0007259;JAK-STAT cascade;0.047240253790555;56469!GO:0031323;regulation of cellular metabolic process;0.047240253790555;212276,53621,65020,56469!}}
{{MCL_coexpression_mm9
|coexpression_dpi_cluster_scores_mean=-0.140069432119431,-0.26316737523655,-0.300537300774884,-0.152128324839475,-0.187404059907409,-0.198293288063708,-0.138683458161076,0.157981201127261,0.292291955055259,0.280663408686234,0.188095502216216,0.200857246905992,0.22401847222589,0.203527110206587,-0.0357438786335492,0.0449645900407041,-0.0554078822071358,0.189630475776498,0.22485444108262,0.08446565285222,0.11709285563765,-0.0153157079902503,-0.00839122355629388,-0.126873929171905,-0.215314228105577,-0.362872726186198,-0.320232908696064,-0.249225731711416,-0.188280128301746,-0.208593876502213,-0.263706128490644,-0.177553166691766,-0.204989675878608,-0.924973954646556,-0.152132604951999,-0.205992764932298,-0.148860840192187,-0.0873493683649186,-0.128056030188218,-0.0861754542049176,-0.119813107466766,-0.0724954296377988,-0.112195222718325,-0.125028644938384,-0.157747884646914,-0.145224679476404,-0.603255463522601,-0.627793797339528,-0.719751483427649,-0.528794944731215,-0.56438007841273,-0.705006114234563,0.152870936370519,0.171146300237991,0.211010440123242,-0.170120931805745,-0.146289741931089,-0.193341821565011,-0.286902923021268,-0.291702094655364,-0.345930352351065,-0.629626348918438,-0.615046275705038,-0.619698491395929,-0.603175171879666,-0.698285339474708,-0.70739985184079,-0.616580503955262,-0.16406729168423,-0.282179232371141,-0.272705027142332,-0.438548910393687,-0.387452980718259,-0.17039062871565,-0.232910024694782,-0.352088059999349,-0.218171001865207,-0.102505874127594,-0.0621470952943467,-0.313055602488769,-0.275665967576559,-0.219470655795522,-0.322342190514499,-0.168272323420886,-0.135079920767956,-0.162291431987524,-0.0850862971636718,-0.202562094589345,-0.10523155311368,-0.106792666213613,0.14111643162528,-0.207438909993474,-0.305725772805676,-0.204178726969305,-0.0795069169087981,-0.0242817082248548,-0.0485096817761391,-0.105549492520861,-0.220817142944964,-0.293480432859947,-0.191100841665365,-0.195020909061766,-0.132666004473966,-0.490045667769829,-0.192236932202966,-0.18206253448986,-0.183237758260057,-0.0138674089233891,0.484148891355402,0.00513486747365672,-0.130758253022151,-0.0955781957735823,-0.131332911940291,-0.0862752873885706,0.0332951436759775,-0.159556468651158,0.0356650339154768,0.12571434341151,0.0315888640929932,-0.0367348805302468,0.00397966726878994,0.0614965914022031,-0.0069261536011874,0.160096485496455,0.0932938618548792,-0.0444263590336555,-0.0137690233908749,-0.18443515429623,-0.0432533222458529,0.0415854757471341,0.0571429164606122,-0.0358511140171315,0.0610017081262596,0.00769208378614112,0.0143399768252376,-0.00234514855209367,-0.00250149447918082,0.0284769248613298,-0.0125463590878481,0.103709341300893,0.0833080537788193,-0.0624503463718113,0.0637341799963462,0.0768861376653615,0.0878619605130936,0.139444606298059,0.0427516389346773,0.128100055556096,0.00760584108001639,0.137455483950038,0.10436919783225,-0.0162902544485908,0.121176981056233,0.093823368278599,0.105759351976457,0.0307052308942958,-0.0458232284886827,-0.0742705508271344,-0.0515525115786164,0.0202401271313697,0.0258777433293297,-0.0180636233561399,0.0412349185805126,0.0348511008580688,0.0140470905646282,0.0326946940869078,-0.0278055067075652,-0.0424464375410441,-0.0565628219397465,0.0126276893399632,0.0319344867590117,-0.00666311387183779,-0.00314631642990342,-0.0109329078782485,0.0760113846072834,0.0132739994167844,-0.0343755570593316,-0.0501129390899126,0.0853204349221049,0.090166525426682,0.0915595782708357,0.0278587936314472,-0.00615882157866148,-0.0666442259901218,-0.0751022807319463,-0.084803948754583,-0.0435531593450652,-0.0502852899249811,-0.0396833245557133,-0.0314680017965256,-0.0317105763313728,-0.0352805215903405,-0.1898673308098,0.0580605761881162,0.0935184916014218,0.0558174302062149,0.0361680468783628,0.00644317294439012,0.0156527279302418,0.0236457572930107,-0.0106918128190846,-0.0472127351950781,-0.0187290607278837,0.0839080480830429,0.0411751091369498,0.0318276987378021,0.0508692393441289,-0.00593381809050759,-0.0689750234431124,-0.00340845706356419,-0.0106814256629316,-0.126158181461369,0.126258480375358,-0.0319072813864252,-0.0381673252117585,-0.0578021314047407,-0.0625428966127366,-0.0625726307662427,0.109933955751212,-0.00910586328381539,0.116494908708478,0.0740444139535511,0.116357174203159,0.119323820540405,0.107363786759056,0.0189076650745853,0.108438080784555,0.0785579810025446,0.0464028954347876,0.0752116938752774,0.05070281483245,0.0590739543796388,0.0534311438534594,-0.055719634228004,0.0100741467528838,0.0639091928602045,0.00371972102297949,-0.00948230069202619,-0.119477062697213,-0.00796689366406561,-0.0747298743072574,-0.0390940275179692,-0.0178478110906696,-0.0237633165206167,-0.00844872591623983,0.00553255625744175,-0.0402164002946196,-0.0434484489224339,-0.00725667968842541,0.101337884454329,0.0849047686541,-0.129586921909932,0.00286080710696894,0.107767499708727,0.0912105755028777,-0.0432375229174903,-0.075847814260023,0.00479442961555627,-0.154513651529498,0.0327204849327558,-0.0170175799011745,0.0259980738480854,0.0162884123193752,0.0698130942336734,-0.0109369109801411,-0.0763437285041737,0.0804302230989549,0.0401982134148232,-0.249242160729744,-0.0865481271014592,0.0405613835563138,-0.0497415912607513,-0.0306524133340729,-0.235586904341258,0.0170471831102987,-0.0274591950570418,0.0314082792738716,0.253595766570868,0.142058309597235,0.107324865470079,0.0470608885792058,0.0934918275837907,-0.0167582095515763,0.0276599133782033,0.054999585208485,-0.00789686092719651,0.0992271509842641,0.0680717486988888,0.166199170734242,0.0268784579189065,0.00216574996230754,-0.00892773198129455,0.00175455386518674,-0.0662066400013294,0.0534813220869551,0.086378711338629,0.0378178675626876,0.0426062707971406,-0.00402232099376956,-0.00326581278516173,-0.0140498870672605,-0.0968839958224349,-0.0347046923024796,0.0511910895134018,0.548118584785111,0.0862172896587087,-0.0368473745925849,0.0250182175253323,-0.0269123934588654,0.0523530059198761,0.0856220400677874,0.0463318158381842,0.114299656893069,0.33443209353242,0.386963405932781,0.206587718613763,-0.12242437642906,0.00400844425925405,0.0720906539355663,0.129544338107899,0.163341915049981,0.0925936914887441,0.139357476183915,0.18046735981288,0.156679695937359,0.177701880354106,0.222185394813364,0.170383394030467,0.220185466464925,0.0757249341862236,0.0295465152696221,0.0983305113192799,0.0678758426492114,0.0759348519909369,-0.0177532275213931,0.051005631240745,0.0443050655501683,0.0570361194585421,0.0264798893336924,0.0225707607329486,0.0254640879985513,-0.0298076486506706,-0.0259224905825297,0.0220581392920014,0.0292174042216355,0.0436184995686064,0.067242659142361,0.0100529997077735,0.0691681596726263,0.104446214873198,-0.00654813586012276,0.0569868625416817,-0.024450975696242,-0.104181406048191,0.0488066343236579,0.0354852872431754,0.0251706672769241,0.04022388059199,0.0487005108794077,0.0537314300226834,0.0449660141877743,0.0313316560598492,0.0408352839462054,0.0508582539464058,0.00736920091087168,-0.000684294897046636,0.0149466984195055,0.03530040181695,0.0370025087645153,0.0392406575398843,0.0430376712666459,0.0472841098183854,0.0443518291899044,0.0119300179261508,0.00206082952177877,0.064960612750056,0.0364800972929069,0.0100156107891536,-0.0208156001622778,-0.0346051547157534,0.0284020497723786,0.0126270703392764,-0.012559020664392,-0.116683961076619,-0.0102230712279149,0.0148639115202085,0.0113985056100177,-0.0533433477537934,-0.00611814637376413
|gostat_on_MCL_coexpression=GO:0003676;nucleic acid binding;0.00530572852107038;212276,104836,53621,65020,67039,56469,212880!GO:0016070;RNA metabolic process;0.00903518597931577;212276,53621,65020,67039,56469,212880!GO:0046914;transition metal ion binding;0.00903518597931577;212276,104836,53621,65020,68916,56469!GO:0010467;gene expression;0.0150623954367083;212276,53621,65020,67039,56469,212880!GO:0043283;biopolymer metabolic process;0.0150623954367083;212276,104836,53621,65020,67039,56469,212880!GO:0008270;zinc ion binding;0.0155505022672948;212276,104836,53621,65020,56469!GO:0006139;nucleobase, nucleoside, nucleotide and nucleic acid metabolic process;0.0155505022672948;212276,53621,65020,67039,56469,212880!GO:0006512;ubiquitin cycle;0.0155505022672948;104836,53621,56469!GO:0043169;cation binding;0.0186580699103838;212276,104836,53621,65020,68916,56469!GO:0046872;metal ion binding;0.0262872557322886;212276,104836,53621,65020,68916,56469!GO:0043167;ion binding;0.0267108832279013;212276,104836,53621,65020,68916,56469!GO:0043170;macromolecule metabolic process;0.036282835004813;212276,104836,53621,65020,67039,56469,212880!GO:0006397;mRNA processing;0.0417523094957805;67039,212880!GO:0030335;positive regulation of cell migration;0.0417523094957805;104836!GO:0007162;negative regulation of cell adhesion;0.0417523094957805;104836!GO:0016071;mRNA metabolic process;0.0417523094957805;67039,212880!GO:0006355;regulation of transcription, DNA-dependent;0.0417523094957805;212276,53621,65020,56469!GO:0051272;positive regulation of cell motility;0.0417523094957805;104836!GO:0040017;positive regulation of locomotion;0.0417523094957805;104836!GO:0006351;transcription, DNA-dependent;0.0417523094957805;212276,53621,65020,56469!GO:0032774;RNA biosynthetic process;0.0417523094957805;212276,53621,65020,56469!GO:0044238;primary metabolic process;0.0417523094957805;212276,104836,53621,65020,67039,56469,212880!GO:0044237;cellular metabolic process;0.0417523094957805;212276,104836,53621,65020,67039,56469,212880!GO:0045449;regulation of transcription;0.0417523094957805;212276,53621,65020,56469!GO:0051539;4 iron, 4 sulfur cluster binding;0.0417523094957805;68916!GO:0019219;regulation of nucleobase, nucleoside, nucleotide and nucleic acid metabolic process;0.0417523094957805;212276,53621,65020,56469!GO:0006350;transcription;0.0417523094957805;212276,53621,65020,56469!GO:0050794;regulation of cellular process;0.0417523094957805;212276,104836,53621,65020,56469!GO:0045807;positive regulation of endocytosis;0.0417523094957805;104836!GO:0016874;ligase activity;0.0417523094957805;104836,53621!GO:0010468;regulation of gene expression;0.0449082443095962;212276,53621,65020,56469!GO:0006396;RNA processing;0.0449082443095962;67039,212880!GO:0007259;JAK-STAT cascade;0.047240253790555;56469!GO:0031323;regulation of cellular metabolic process;0.047240253790555;212276,53621,65020,56469!
}}

Revision as of 11:09, 11 October 2012


Phase1 CAGE Peaks

 Short description
Mm9::chr12:32184406..32184428,-p1@Cbll1
Mm9::chr12:70458107..70458168,-p1@Nemf
Mm9::chr12:84973158..84973275,+p1@Rbm25
Mm9::chr13:29947499..29947545,-p1@Cdkal1
Mm9::chr13:55736363..55736397,+p1@Ddx46
Mm9::chr13:67654035..67654112,-p1@Zfp748
Mm9::chr16:87432729..87432793,-p1@Ltn1
Mm9::chr3:51219908..51219966,+p1@Naa15
Mm9::chr4:132194943..132195033,+p1@Eya3
Mm9::chr4:48486275..48486329,-p1@Tex10
Mm9::chr5:124199383..124199400,-p1@Rsrc2
Mm9::chr5:151468135..151468181,-p1@N4bp2l2
Mm9::chr6:118369406..118369459,-p1@Bms1
Mm9::chr6:35083688..35083730,-p1@Cnot4
Mm9::chr7:13420322..13420401,+p1@Zfp110
Mm9::chr9:62828681..62828709,-p1@Pias1


Enriched pathways on this co-expression cluster<b>Summary:</b><br>Canonical pathway gene sets were compiled from Reactome, Wikipathways and KEGG. For the major signaling pathways, the transcriptionally-regulated genes (downstream targets) were obtained from Netpath. Combined, the canonical pathways and downstream targets totaled 489 human gene sets. The corresponding M. musculus gene sets were inferred by homology using the HomoloGene database. Enrichment for each of the canonical 489 pathways and gene sets included in the co-expression cluster was assessed by the hypergeometric probability. The resulting P values were also then adjusted by the Benjamini-Hochberg method for multiple comparisons.<br><b>Analyst: </b>Emmanuel Dimont<br><br>link to source dataset<br>data

GO IDGO nameFDR corrected p-value
GO:0003676nucleic acid binding0.00530572852107038
GO:0016070RNA metabolic process0.00903518597931577
GO:0046914transition metal ion binding0.00903518597931577
GO:0010467gene expression0.0150623954367083
GO:0043283biopolymer metabolic process0.0150623954367083
GO:0008270zinc ion binding0.0155505022672948
GO:0006139nucleobase, nucleoside, nucleotide and nucleic acid metabolic process0.0155505022672948
GO:0006512ubiquitin cycle0.0155505022672948
GO:0043169cation binding0.0186580699103838
GO:0046872metal ion binding0.0262872557322886
GO:0043167ion binding0.0267108832279013
GO:0043170macromolecule metabolic process0.036282835004813
GO:0006397mRNA processing0.0417523094957805
GO:0030335positive regulation of cell migration0.0417523094957805
GO:0007162negative regulation of cell adhesion0.0417523094957805
GO:0016071mRNA metabolic process0.0417523094957805
GO:0006355regulation of transcription, DNA-dependent0.0417523094957805
GO:0051272positive regulation of cell motility0.0417523094957805
GO:0040017positive regulation of locomotion0.0417523094957805
GO:0006351transcription, DNA-dependent0.0417523094957805
GO:0032774RNA biosynthetic process0.0417523094957805
GO:0044238primary metabolic process0.0417523094957805
GO:0044237cellular metabolic process0.0417523094957805
GO:0045449regulation of transcription0.0417523094957805
GO:00515394 iron, 4 sulfur cluster binding0.0417523094957805
GO:0019219regulation of nucleobase, nucleoside, nucleotide and nucleic acid metabolic process0.0417523094957805
GO:0006350transcription0.0417523094957805
GO:0050794regulation of cellular process0.0417523094957805
GO:0045807positive regulation of endocytosis0.0417523094957805
GO:0016874ligase activity0.0417523094957805
GO:0010468regulation of gene expression0.0449082443095962
GO:0006396RNA processing0.0449082443095962
GO:0007259JAK-STAT cascade0.047240253790555
GO:0031323regulation of cellular metabolic process0.047240253790555



Relative expression of the co-expression cluster over median <br>Analyst:


"{{{coexpression_dpi_cluster_scores_median}}}" is not a number.

Enriched sample ontology terms on this co-expression cluster<b>Summary:</b>To summarize promoter activities (expression profile of a TSS region) across ~1000 samples, we performed enrichment analysis based on FANTOM5 Sample Ontology (FF ontology). The question here is “in which type of samples the promoter is more active”. To answer this question, we compared expressions (TPMs) in the samples associated with a sample ontology term and the rest of the samples by using the Mann-Whitney rank sum test. To summarize ontologies enriched in this co-expression cluster, we ran the same analysis on an averaged expression profile of all promoters that make up. <b>Analyst:</b> Hideya Kawaji <br><br>links to source dataset<br><br>cell_data<br>uberon_data<br>disease_data<br>

Cell Type
Ontology termp-valuen

Uber Anatomy
Ontology termp-valuen

Disease
Ontology termp-valuen


TFBS overrepresentation<b>Summary:</b>The values shown are the p-values for overrepresentation of the motif in this coexpression cluster. So a small p-value means a strong overrepresentation. <b>Analyst:</b> Michiel de Hoon <br><br>link to source data <br> Novel motifs <br>data <br><br> Jaspar motifs <br>data

Novel motifs




JASPAR motifs


Motifs-log10(p-value)

{{{tfbs_overrepresentation_jaspar}}}

Retrieved from "http://f5-webapp4.gsc.riken.jp/resource_browser/index.php?title=MCL_coexpression_mm9:466&oldid=2145980"