Personal tools

MCL coexpression mm9:788: Difference between revisions

From FANTOM5_SSTAR

Jump to: navigation, search
No edit summary
No edit summary
Line 3: Line 3:
|coexpression_dpi_cluster_scores_median=0.016229724077178,-0.0369902252805148,0.0288018929555709,-0.0416283612594766,-0.0127761322249096,-0.181723133814035,-0.142471552386665,0.00694005117719954,-0.141376229003997,-0.249121084251026,-0.223527512426585,-0.291366108517451,-0.00211779717871674,0.0265506463888907,-0.000356105052645495,0.0843669167983108,0.0880943788427413,0.0616727306931255,0.107582486546772,0.0335061219984567,0.386029607542814,-0.118020529385233,-0.148337194785217,-0.128552139041997,-0.143879023672014,-0.128958420526301,-0.0210474571397994,-0.0429143220151045,-0.0892205278368701,-0.0330849530009634,-0.141501342738652,-0.111380369759073,-0.0253070124857352,-0.472726495616698,-0.270467988634039,-0.175827714112709,-0.271975516989401,0.511331310678609,0.457196476600831,0.437809502058081,0.645266751722874,0.605027572581748,0.591357571930871,-0.0241424119195337,-0.0552732447103066,-0.120769620189692,-0.302688664328382,-0.0142498586037614,-0.0292593716968277,0.0169695927774931,0.104963870580634,-0.111922026786569,-0.0151727433712201,-0.0121672312710785,-0.0697690635806623,-0.0116041209040916,-0.0376219756346877,-0.037447624804452,0.275014550713991,0.33375036192797,0.299260007671208,-0.215271710605014,-0.400919622074372,-0.289351587101813,-0.349511527540978,-0.47213115573432,-0.274212080794273,-0.111505641919885,0.154260065491665,0.150742236804811,0.11401877156712,0.248619231785292,0.212501537561181,0.194436509074685,0.129515436518941,0.19789254679754,0.240035678287391,0.32278582604225,0.276365716841017,0.244774232084065,0.25849188799169,0.304082895127043,0.225222441004426,0.232251868678287,0.290710012496834,0.342514774592976,0.363584745065755,0.343901504487019,-0.0619597550010729,0.0497627578920254,-0.0582080915323149,-0.249121084251026,-0.339113767078506,-0.369335457125151,-0.226008522448107,-0.147758046981351,0.0422513221563006,-0.180775519631942,-0.181978270223143,-0.114187501043071,0.0634770898757269,-0.152756727057934,0.000959958195141386,-0.249121084251026,-0.114787954112424,-0.158776902877763,-0.203402688971183,0.0328159566703545,0.0728228942349987,-0.0208923376964267,-0.118307579308557,-0.105073341658203,-0.000826675859929349,-0.0500100532549295,0.0417999380350307,0.0809953917482991,-0.128194966010286,-0.0509047197777005,0.0192840505686125,0.00731245174154838,0.0488277020346246,0.0625182489294429,-0.0841011958145563,0.353056482362097,0.298729037524894,-0.0853659598599492,-0.212610853908078,-0.287277602197576,-0.24577927244539,0.301288963467697,0.321521785211814,0.360181878974575,0.363965591664901,0.413457302063422,0.272881659815411,0.328793459547121,-0.0420157896759884,0.0327140424997603,-0.0712945034474622,0.135837468336307,-0.0549969880136021,0.0193421024849112,-0.0135298915702667,0.0322885607516528,0.111224912406663,0.0838539001382175,0.166488259272045,0.304604273237789,-0.164341828081401,-0.112330754157552,-0.0119040384012286,-0.128170097345386,-0.110004143160952,-0.0449133006634297,-0.0498837810146775,-0.0597803838859783,-0.109111795200276,-0.266254709226158,-0.139449659127322,-0.123327594169155,-0.184686097723163,-0.111065121421753,-0.139547744537954,-0.133490131300497,-0.0652009738447514,-0.01322514870395,-0.00868318209279506,0.00807292180184249,0.0782311062823622,-0.0298851140728071,0.0277442435873847,0.0377682056783391,-0.00467638504980017,-0.02613629322825,0.323026399896759,0.293939484261456,0.015765311476188,-0.139279915695776,-0.0948260183161719,-0.00187300768551024,-0.0701566603915851,-0.102736364039428,-0.0887478529501853,-0.0917270598896296,-0.00994742792187814,-0.0665774520271292,-0.105960414709702,-0.0626651868127668,-0.0836324314230497,-0.0656747757920246,-0.0360430799050107,0.0362435703634828,-0.176060647196717,-0.0746932432951986,-0.0141493729331759,-0.0250717987182738,-0.0420787207614581,-0.0143395314415553,0.0230141702014586,-0.05734919750169,0.0183267281456964,-0.0404148729361926,-0.169567820719913,-0.0728748626560239,-0.122087827346508,-0.052716574316827,-0.105421368199905,-0.0531116265488327,-0.110134613881081,-0.0310616290219705,-0.19341734755534,-0.059742110772289,0.137855977859361,-0.146613297757935,-0.155060943408085,-0.151316000267789,-0.138878837767015,-0.0720623028687895,0.0333088851507257,-0.109562227565991,-0.106140915657675,-0.0696939892882764,-0.0936898532250556,-0.0114000432991006,-0.0344594071092128,0.0507069271726566,0.0123657722436312,0.0214858791249795,0.0582644285495018,0.0674426905214189,0.0998909534655181,0.0974373410967493,-0.249121084251026,-0.0362007862757634,-0.160421171037427,-0.116631157932322,0.215639494383385,0.288275832670811,-0.183192376835328,0.0336034075158902,-0.0130260337165673,-0.0327814629473353,0.0730657861270714,-0.0173431488401974,0.0224431834468364,0.00219542533643158,0.0200816742171366,0.0748812348940919,0.0328616657256773,0.229448734836352,-0.0538414102194056,-0.149135862801265,0.020650745747526,-0.03628697337695,-0.203890374825415,-0.199866120292571,-0.0762939094521402,-0.159155107112448,-0.136750084071389,-0.0604225613447702,0.025732267325153,0.00771994774202556,0.00390975320137321,-0.138224131496508,0.0221614093960696,0.0128350320873227,0.141898828262203,-0.0572646189108914,-0.188090320799076,-0.0334805854142092,0.02569610670242,0.0621777530855894,0.0987986713486637,0.0392121644688466,0.0101582338126271,0.0121084134836369,-0.172446396635177,0.0495830227333059,-0.0101053482824254,0.0252256233935055,0.0420209573128794,0.0326799166848467,-0.0819665976443842,0.266461752706844,0.0337998952418512,-0.0712664887522299,-0.0278448901200312,0.0647148403352527,0.0223686261549385,0.0539101581613675,-0.13867721826799,-0.134235044457371,-0.0937575601663274,-0.113918208088956,-0.0879985156791929,-0.0316346648350312,-0.0731568841302761,-0.0427569790485109,-0.030300075376694,0.00341936220020922,0.0115286049964023,-0.0580800790248739,-0.00309229240177078,-0.075943097183987,0.930005410221967,-0.0857498868727968,-0.070582971712738,-0.00224210594971996,-0.0308875742240051,-0.0166043302843379,0.0258694293577648,0.0492993360588849,0.0849541151059759,0.670188999141212,0.859366708228327,0.0912353624487203,-0.177563942637629,-0.0812738536867872,-0.0657633914740821,-0.0931899638264448,0.00487692962125047,0.0944912026672893,-0.00644274325428795,0.0204190196694063,0.0431429126706868,0.0592875669765396,0.0672763566457745,0.0599822094719229,0.131546438306588,0.022843881032621,-0.162054870494404,-0.232942351165008,-0.150075426445475,0.0192136198870878,-0.0523400081126353,-0.0743948928284004,-0.109825053482525,-0.158091391271275,0.431753467081162,0.456328497908221,0.404554612756173,0.46418150043482,0.395243840088192,0.387775527222303,0.407055058734332,0.41387928280429,0.363469909209852,0.39327748767139,-0.0583652943183268,0.0043516310076509,0,-0.0770399016019462,0.0524246959603583,-0.00665758370375702,-0.00707104947823867,0.0471993889649875,0.046403249883632,-0.00238435350549571,0.0352407302212898,-0.00487608963023511,0.0501080726329912,0.0388967106043834,0.0298845602876958,0.0326643694255713,0.0514162861148038,0.0259399677377689,0.0137191507523875,0.0255980638568098,0.0203038878265516,0.00215925880094936,0.0769850552224967,0.019282996602777,0.0487948531560245,0.0366073630967989,0.0494848475335687,-0.00550980059265127,0.0102452755439497,-0.0498627354689121,0.0207336903217999,0.0464656380671069,0.0488551427681621,0.0482343952881387,-0.000961670664028969,0.0387489726136077,-0.013961537263842,0.0354248309033121,-0.0677843179319111,-0.0285490572471093,0.0174467423912454
|coexpression_dpi_cluster_scores_median=0.016229724077178,-0.0369902252805148,0.0288018929555709,-0.0416283612594766,-0.0127761322249096,-0.181723133814035,-0.142471552386665,0.00694005117719954,-0.141376229003997,-0.249121084251026,-0.223527512426585,-0.291366108517451,-0.00211779717871674,0.0265506463888907,-0.000356105052645495,0.0843669167983108,0.0880943788427413,0.0616727306931255,0.107582486546772,0.0335061219984567,0.386029607542814,-0.118020529385233,-0.148337194785217,-0.128552139041997,-0.143879023672014,-0.128958420526301,-0.0210474571397994,-0.0429143220151045,-0.0892205278368701,-0.0330849530009634,-0.141501342738652,-0.111380369759073,-0.0253070124857352,-0.472726495616698,-0.270467988634039,-0.175827714112709,-0.271975516989401,0.511331310678609,0.457196476600831,0.437809502058081,0.645266751722874,0.605027572581748,0.591357571930871,-0.0241424119195337,-0.0552732447103066,-0.120769620189692,-0.302688664328382,-0.0142498586037614,-0.0292593716968277,0.0169695927774931,0.104963870580634,-0.111922026786569,-0.0151727433712201,-0.0121672312710785,-0.0697690635806623,-0.0116041209040916,-0.0376219756346877,-0.037447624804452,0.275014550713991,0.33375036192797,0.299260007671208,-0.215271710605014,-0.400919622074372,-0.289351587101813,-0.349511527540978,-0.47213115573432,-0.274212080794273,-0.111505641919885,0.154260065491665,0.150742236804811,0.11401877156712,0.248619231785292,0.212501537561181,0.194436509074685,0.129515436518941,0.19789254679754,0.240035678287391,0.32278582604225,0.276365716841017,0.244774232084065,0.25849188799169,0.304082895127043,0.225222441004426,0.232251868678287,0.290710012496834,0.342514774592976,0.363584745065755,0.343901504487019,-0.0619597550010729,0.0497627578920254,-0.0582080915323149,-0.249121084251026,-0.339113767078506,-0.369335457125151,-0.226008522448107,-0.147758046981351,0.0422513221563006,-0.180775519631942,-0.181978270223143,-0.114187501043071,0.0634770898757269,-0.152756727057934,0.000959958195141386,-0.249121084251026,-0.114787954112424,-0.158776902877763,-0.203402688971183,0.0328159566703545,0.0728228942349987,-0.0208923376964267,-0.118307579308557,-0.105073341658203,-0.000826675859929349,-0.0500100532549295,0.0417999380350307,0.0809953917482991,-0.128194966010286,-0.0509047197777005,0.0192840505686125,0.00731245174154838,0.0488277020346246,0.0625182489294429,-0.0841011958145563,0.353056482362097,0.298729037524894,-0.0853659598599492,-0.212610853908078,-0.287277602197576,-0.24577927244539,0.301288963467697,0.321521785211814,0.360181878974575,0.363965591664901,0.413457302063422,0.272881659815411,0.328793459547121,-0.0420157896759884,0.0327140424997603,-0.0712945034474622,0.135837468336307,-0.0549969880136021,0.0193421024849112,-0.0135298915702667,0.0322885607516528,0.111224912406663,0.0838539001382175,0.166488259272045,0.304604273237789,-0.164341828081401,-0.112330754157552,-0.0119040384012286,-0.128170097345386,-0.110004143160952,-0.0449133006634297,-0.0498837810146775,-0.0597803838859783,-0.109111795200276,-0.266254709226158,-0.139449659127322,-0.123327594169155,-0.184686097723163,-0.111065121421753,-0.139547744537954,-0.133490131300497,-0.0652009738447514,-0.01322514870395,-0.00868318209279506,0.00807292180184249,0.0782311062823622,-0.0298851140728071,0.0277442435873847,0.0377682056783391,-0.00467638504980017,-0.02613629322825,0.323026399896759,0.293939484261456,0.015765311476188,-0.139279915695776,-0.0948260183161719,-0.00187300768551024,-0.0701566603915851,-0.102736364039428,-0.0887478529501853,-0.0917270598896296,-0.00994742792187814,-0.0665774520271292,-0.105960414709702,-0.0626651868127668,-0.0836324314230497,-0.0656747757920246,-0.0360430799050107,0.0362435703634828,-0.176060647196717,-0.0746932432951986,-0.0141493729331759,-0.0250717987182738,-0.0420787207614581,-0.0143395314415553,0.0230141702014586,-0.05734919750169,0.0183267281456964,-0.0404148729361926,-0.169567820719913,-0.0728748626560239,-0.122087827346508,-0.052716574316827,-0.105421368199905,-0.0531116265488327,-0.110134613881081,-0.0310616290219705,-0.19341734755534,-0.059742110772289,0.137855977859361,-0.146613297757935,-0.155060943408085,-0.151316000267789,-0.138878837767015,-0.0720623028687895,0.0333088851507257,-0.109562227565991,-0.106140915657675,-0.0696939892882764,-0.0936898532250556,-0.0114000432991006,-0.0344594071092128,0.0507069271726566,0.0123657722436312,0.0214858791249795,0.0582644285495018,0.0674426905214189,0.0998909534655181,0.0974373410967493,-0.249121084251026,-0.0362007862757634,-0.160421171037427,-0.116631157932322,0.215639494383385,0.288275832670811,-0.183192376835328,0.0336034075158902,-0.0130260337165673,-0.0327814629473353,0.0730657861270714,-0.0173431488401974,0.0224431834468364,0.00219542533643158,0.0200816742171366,0.0748812348940919,0.0328616657256773,0.229448734836352,-0.0538414102194056,-0.149135862801265,0.020650745747526,-0.03628697337695,-0.203890374825415,-0.199866120292571,-0.0762939094521402,-0.159155107112448,-0.136750084071389,-0.0604225613447702,0.025732267325153,0.00771994774202556,0.00390975320137321,-0.138224131496508,0.0221614093960696,0.0128350320873227,0.141898828262203,-0.0572646189108914,-0.188090320799076,-0.0334805854142092,0.02569610670242,0.0621777530855894,0.0987986713486637,0.0392121644688466,0.0101582338126271,0.0121084134836369,-0.172446396635177,0.0495830227333059,-0.0101053482824254,0.0252256233935055,0.0420209573128794,0.0326799166848467,-0.0819665976443842,0.266461752706844,0.0337998952418512,-0.0712664887522299,-0.0278448901200312,0.0647148403352527,0.0223686261549385,0.0539101581613675,-0.13867721826799,-0.134235044457371,-0.0937575601663274,-0.113918208088956,-0.0879985156791929,-0.0316346648350312,-0.0731568841302761,-0.0427569790485109,-0.030300075376694,0.00341936220020922,0.0115286049964023,-0.0580800790248739,-0.00309229240177078,-0.075943097183987,0.930005410221967,-0.0857498868727968,-0.070582971712738,-0.00224210594971996,-0.0308875742240051,-0.0166043302843379,0.0258694293577648,0.0492993360588849,0.0849541151059759,0.670188999141212,0.859366708228327,0.0912353624487203,-0.177563942637629,-0.0812738536867872,-0.0657633914740821,-0.0931899638264448,0.00487692962125047,0.0944912026672893,-0.00644274325428795,0.0204190196694063,0.0431429126706868,0.0592875669765396,0.0672763566457745,0.0599822094719229,0.131546438306588,0.022843881032621,-0.162054870494404,-0.232942351165008,-0.150075426445475,0.0192136198870878,-0.0523400081126353,-0.0743948928284004,-0.109825053482525,-0.158091391271275,0.431753467081162,0.456328497908221,0.404554612756173,0.46418150043482,0.395243840088192,0.387775527222303,0.407055058734332,0.41387928280429,0.363469909209852,0.39327748767139,-0.0583652943183268,0.0043516310076509,0,-0.0770399016019462,0.0524246959603583,-0.00665758370375702,-0.00707104947823867,0.0471993889649875,0.046403249883632,-0.00238435350549571,0.0352407302212898,-0.00487608963023511,0.0501080726329912,0.0388967106043834,0.0298845602876958,0.0326643694255713,0.0514162861148038,0.0259399677377689,0.0137191507523875,0.0255980638568098,0.0203038878265516,0.00215925880094936,0.0769850552224967,0.019282996602777,0.0487948531560245,0.0366073630967989,0.0494848475335687,-0.00550980059265127,0.0102452755439497,-0.0498627354689121,0.0207336903217999,0.0464656380671069,0.0488551427681621,0.0482343952881387,-0.000961670664028969,0.0387489726136077,-0.013961537263842,0.0354248309033121,-0.0677843179319111,-0.0285490572471093,0.0174467423912454
|gostat_on_MCL_coexpression=GO:0047372;acylglycerol lipase activity;0.0430614145619898;23945!GO:0016788;hydrolase activity, acting on ester bonds;0.0431944016503038;23945,237860,22258!
|gostat_on_MCL_coexpression=GO:0047372;acylglycerol lipase activity;0.0430614145619898;23945!GO:0016788;hydrolase activity, acting on ester bonds;0.0431944016503038;23945,237860,22258!
|ontology_enrichment_celltype=CL:0000117!1.66e-11!23;CL:0000337!1.66e-11!23;CL:0000540!2.00e-10!33;CL:0000047!2.00e-10!33;CL:0000031!2.00e-10!33;CL:0000404!2.00e-10!33;CL:0000393!3.69e-08!39;CL:0000211!3.69e-08!39;CL:0000221!2.44e-07!44;CL:0000133!2.44e-07!44;CL:0002319!4.22e-07!43
|ontology_enrichment_disease=
|ontology_enrichment_uberon=UBERON:0001017!3.92e-19!73;UBERON:0000073!4.39e-19!54;UBERON:0002346!4.47e-19!64;UBERON:0003075!4.47e-19!64;UBERON:0007284!4.47e-19!64;UBERON:0004121!5.25e-19!95;UBERON:0000924!5.25e-19!95;UBERON:0006601!5.25e-19!95;UBERON:0001016!6.45e-19!75;UBERON:0010371!3.90e-18!73;UBERON:0001049!4.94e-18!52;UBERON:0005068!4.94e-18!52;UBERON:0006241!4.94e-18!52;UBERON:0007135!4.94e-18!52;UBERON:0002020!8.09e-17!34;UBERON:0003056!1.29e-15!49;UBERON:0000955!2.30e-15!47;UBERON:0006238!2.30e-15!47;UBERON:0002616!6.40e-15!46;UBERON:0003080!1.99e-14!40;UBERON:0003528!3.37e-14!29;UBERON:0002791!3.37e-14!29;UBERON:0001893!3.37e-14!29;UBERON:0002780!6.46e-14!39;UBERON:0001890!6.46e-14!39;UBERON:0006240!6.46e-14!39;UBERON:0010314!2.32e-13!92;UBERON:0000956!2.24e-10!21;UBERON:0001869!2.24e-10!21;UBERON:0000203!2.24e-10!21;UBERON:0002619!9.84e-09!17;UBERON:0002021!1.49e-07!10;UBERON:0000411!1.49e-07!10;UBERON:0001950!1.49e-07!10
}}
}}

Revision as of 21:15, 11 October 2012


Phase1 CAGE Peaks

 Short description
Mm9::chr11:51449224..51449286,-p1@Rmnd5b
Mm9::chr11:77029682..77029781,+p1@Ssh2
Mm9::chr1:82721484..82721518,+p1@LOC637796
p1@Mff
Mm9::chr2:153117140..153117195,+p1@Kif3b
Mm9::chr6:88674661..88674745,+p2@Mgll
Mm9::chr7:107756172..107756206,-p4@Mrpl48
Mm9::chr7:120512840..120512909,-p1@Btbd10
Mm9::chr9:108250158..108250257,+p1@Usp4
Mm9::chr9:22215959..22216020,+p1@9530077C05Rik


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:0047372acylglycerol lipase activity0.0430614145619898
GO:0016788hydrolase activity, acting on ester bonds0.0431944016503038



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





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><br>


Cell Type
Ontology termp-valuen
CNS neuron (sensu Vertebrata)1.66e-1123
neuroblast (sensu Vertebrata)1.66e-1123
neuron2.00e-1033
neuronal stem cell2.00e-1033
neuroblast2.00e-1033
electrically signaling cell2.00e-1033
electrically responsive cell3.69e-0839
electrically active cell3.69e-0839
ectodermal cell2.44e-0744
neurectodermal cell2.44e-0744
neural cell4.22e-0743

Uber Anatomy
Ontology termp-valuen
central nervous system3.92e-1973
regional part of nervous system4.39e-1954
neurectoderm4.47e-1964
neural plate4.47e-1964
presumptive neural plate4.47e-1964
ectoderm-derived structure5.25e-1995
ectoderm5.25e-1995
presumptive ectoderm5.25e-1995
nervous system6.45e-1975
ecto-epithelium3.90e-1873
neural tube4.94e-1852
neural rod4.94e-1852
future spinal cord4.94e-1852
neural keel4.94e-1852
gray matter8.09e-1734
pre-chordal neural plate1.29e-1549
brain2.30e-1547
future brain2.30e-1547
regional part of brain6.40e-1546
anterior neural tube1.99e-1440
brain grey matter3.37e-1429
regional part of telencephalon3.37e-1429
telencephalon3.37e-1429
regional part of forebrain6.46e-1439
forebrain6.46e-1439
future forebrain6.46e-1439
structure with developmental contribution from neural crest2.32e-1392
cerebral cortex2.24e-1021
cerebral hemisphere2.24e-1021
pallium2.24e-1021
regional part of cerebral cortex9.84e-0917
occipital lobe1.49e-0710
visual cortex1.49e-0710
neocortex1.49e-0710


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}}}