Personal tools

MCL coexpression mm9:1013: 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=-0.00408247610923285,0.418961348002983,0.40596461384853,0.30055447930417,0.222272046879962,0.26609559987721,0.237614640991542,-0.0690511100996908,-0.322878637955238,-0.182610051780648,-0.330864792316013,-0.253728020168086,-0.101036800196274,-0.1385262002701,-0.130788182540128,-0.144633337599434,-0.107990792963583,-0.125893962350089,-0.160907199187615,-0.278352568643104,0.0807166459595143,0.0747464368876155,0.0596347957248862,0.293819419395188,0.3091666130922,0.348208741248208,0.30965105865249,0.367792440668966,0.368788983406315,0.266369217645269,0.459592422620417,-0.0989038642805278,-0.205465347916287,-0.399502518804687,-0.136146316762565,0.0768675888239694,0.0210068663386486,-0.0648723471002571,0.0703650275257047,-0.0867916498143717,-0.198588716779338,-0.0307916231167507,-0.101362540352858,0.29403114056464,0.286447218200964,0.252491131600655,0.204363897722703,0.10295895603854,0.171804066453557,0.333230862082964,0.163475298792271,0.0718422534841645,-0.128553474096088,-0.188171578734999,-0.056208731308071,0.0554803733384764,0.0706491064440433,0.138913337314156,-0.117081973703133,-0.153922850913492,0.0792503824547302,0.0263577604114329,0.0595883570121899,0.175086840619019,0.18747063545419,0.06776054600635,0.100263282359889,0.116851703539909,-0.183902210654564,-0.199996707029798,-0.216711371335999,0.136408205462885,0.249528047452493,-0.160216858399684,-0.17696205424571,-0.216711371335999,0.407267503814531,0.284112505257591,0.180725145834822,-0.00289858549804989,-0.0266173139073225,-0.0888080770430002,0.110965112643339,0.355340995719542,0.186062688054808,0,0.116099394323333,-0.0422538475945569,-0.0322347383644789,0.0118773377011334,-0.0181287867324576,0.424671666378952,0.306346488963519,0.633215937462452,0.658148760665083,0.565593336204504,0.219613842946002,0.0165439045400353,0.0696943154418905,0.0442940299236797,0.0777431466071354,0.115218747278948,-0.0976488646879539,0,0.0458560385193656,-0.0469540455623709,0.0241370350596908,0.349463911860186,0.00147146928422126,0.234191250360128,-0.116917224039348,-0.0364627110127456,-0.00155490454909946,0.0717003181741795,0.0601039441198741,0.140613448656791,0.0978928981607211,-0.0045189351602884,0.104029858571349,-0.0774230074806792,-0.124567775847316,-0.118390915040448,0.240249148902568,0.145895961525052,0.167404849568002,0.392400955642977,-0.122456615066388,-0.0821734787784567,-0.159845540271596,0.248780620862113,0.178538385587276,-0.0225246862222558,0.146708839523974,0.151600218710053,0.271540375145001,0.174253988375182,-0.140694111135146,0.109555393476048,0.526068723599223,0.339468469277902,-0.14890623414022,-0.146969133463141,-0.147440359759191,-0.182294144502907,-0.104708438672077,-0.0988649404261179,-0.120954300884348,0.210040491835475,-0.216711371335999,-0.150808218756088,-0.187856655710561,-0.126088474143174,-0.141919466055318,-0.0754488242249318,-0.0775104830012339,-0.116015707904196,-0.161172110069306,0.0478780856723678,0.115484352469507,-0.216711371335999,-0.216711371335999,-0.235509134330268,-0.205994971230187,-0.29743422192708,-0.207171065244447,-0.216711371335999,-0.113498486938348,-0.199794855572901,-0.09314727629741,-0.0780566278580415,-0.0701120980542767,-0.0762240437962709,-0.0775059190853722,-0.111825066068536,0.119613434266808,-0.0310358546622835,0.409998024481988,0.282162945244983,-0.216711371335999,-0.233821047724106,-0.120275513999758,0.0177147007784209,0.0457505783270888,0.160554297217169,0.304454134756989,0.272919123555433,0.224094862276667,0.196865276411072,0.200839229308861,0.229458028470207,0.265594218387819,0.270445903231449,-0.142703805560451,-0.187663898896549,-0.0717192343601521,-0.0296226434201867,0.142506704078939,0.12914941188707,0.277238944469675,0.375598572329532,0.391553275057247,0.440110032689328,0.465613271991628,-0.094285892025407,-0.0359443193732906,-0.175594975299537,-0.00523746713359652,0.0741749571973969,0.104389938951611,0.27628038448232,0.0801976130028521,0.2603469992513,0.272636867902784,0.33370277800674,0.389555073835302,0.381488834102198,0.495744978654704,0.536186785713745,0.0666403488165788,-0.164291505577179,-0.204355384668187,-0.169972175602447,-0.127974624449581,-0.0818736411346084,0.0161490327876246,0.0845778747251071,-0.0195243350781498,-0.0407329583553047,0.0055000254114852,0.0964493185769695,0.0727224000307181,0.0242238480488721,-0.0293813750547014,-0.028090605289781,0.555437370328328,0.25038700471601,0.294865638507474,0.327587231097631,-0.102046301521304,-0.0449418349282034,-0.00309809608756817,-0.038195931288632,-0.0496771073777367,-0.066018555172442,-0.117574329973907,-0.123305707547231,0.0496655745091775,0.0653129493001072,-0.0720475813000681,0.173455248593667,0.0651669604338523,-0.145541895386308,-0.140761152723174,0.118061018999649,0.698636808362033,-0.126384402991408,0.171146881703773,0.500927001231516,0.594589627043054,0.529151765780197,0.21276656043244,0.306043137816311,0.311191691235768,0.586389222554697,0.662773315577571,0.627853557923985,0.348451727156321,-0.202503845881092,-0.138285111067818,-0.0891037946680195,-0.0130347693981161,0.0555108147588195,0.069028996564834,0.157390613205053,0.176940089512585,0.13457673695266,0.766745815735407,-0.0925787908778588,0.0223999557838002,-0.0580233696291956,-0.0663206430518903,0.0402096004507486,0.213181706519413,0.291832301949448,-0.0432633420920178,-0.0112755116490753,-0.0798674900630562,-0.0778604141656278,-0.131827850606202,-0.0542506258986244,-0.148533516274449,-0.169115613583326,-0.117674679987764,0.407415562219151,-0.216711371335999,-0.0891299294370238,-0.0607618743917162,0.0424775992456188,0.0442517753489884,0.160049182662361,0.179097493896521,0.330485068564932,0.19864111852236,0.55598539475146,-0.216711371335999,-0.187702495610204,-0.163287193469299,-0.156454268213147,-0.1574454703539,-0.139115637635426,-0.159578146519023,-0.116199955083947,-0.126365084132329,0.0056556782097324,-0.174001396809463,-0.0487313837829557,-0.190512241186826,-0.168562783694687,-0.156574685422482,-0.127899447504537,-0.138007621308121,-0.120427894978893,-0.1527069481236,-0.101800503969927,-0.135092067798828,-0.163453142630926,-0.157023933934275,-0.140280778165308,0.020681179372484,-0.032887085242143,-0.152883716740116,-0.145040043081033,-0.115211399054869,0.0763672843261616,0.351733737437673,0.0846500030785662,0.0983947704525217,0.732093775944139,0.0874832415644697,0.119225381117789,0.0876359286953601,0.108622710955593,0.158067216558725,0.127205811929287,0.30380046913089,0.168925357376805,0.18556464272608,0.0919641355899105,-0.399662227022351,-0.123728935766795,-0.169333577166717,-0.167580692212533,-0.299800789887145,-0.174603051819113,-0.123273570099636,-0.0499898668640342,-0.0701507339693712,-0.100993176388591,-0.0342861631384913,-0.0832379874996678,-0.0785457644984201,-0.0459881121731952,-0.0525121069624538,-0.108892040190247,-0.0627205205360075,-0.110286571313239,-0.0759234098821568,-0.0615261338719618,0.0341627298440315,-0.0313314574773375,-0.0667368254728795,-0.064491914317301,-0.0411032004998388,-0.0556020821410601,-0.073178946857422,-0.0347000318807998,-0.0682900163185095,-0.014774535823298,-0.0596707577278466,-0.104269446115576,0.0170685414949641,-0.0611678444873258,-0.0355102552356448,-0.0374623395085712,-0.0452068490879234,-0.0543294927115361,-0.0867977897538013,-0.038685660471812,-0.0689118377273756
|coexpression_dpi_cluster_scores_median=-0.00408247610923285,0.418961348002983,0.40596461384853,0.30055447930417,0.222272046879962,0.26609559987721,0.237614640991542,-0.0690511100996908,-0.322878637955238,-0.182610051780648,-0.330864792316013,-0.253728020168086,-0.101036800196274,-0.1385262002701,-0.130788182540128,-0.144633337599434,-0.107990792963583,-0.125893962350089,-0.160907199187615,-0.278352568643104,0.0807166459595143,0.0747464368876155,0.0596347957248862,0.293819419395188,0.3091666130922,0.348208741248208,0.30965105865249,0.367792440668966,0.368788983406315,0.266369217645269,0.459592422620417,-0.0989038642805278,-0.205465347916287,-0.399502518804687,-0.136146316762565,0.0768675888239694,0.0210068663386486,-0.0648723471002571,0.0703650275257047,-0.0867916498143717,-0.198588716779338,-0.0307916231167507,-0.101362540352858,0.29403114056464,0.286447218200964,0.252491131600655,0.204363897722703,0.10295895603854,0.171804066453557,0.333230862082964,0.163475298792271,0.0718422534841645,-0.128553474096088,-0.188171578734999,-0.056208731308071,0.0554803733384764,0.0706491064440433,0.138913337314156,-0.117081973703133,-0.153922850913492,0.0792503824547302,0.0263577604114329,0.0595883570121899,0.175086840619019,0.18747063545419,0.06776054600635,0.100263282359889,0.116851703539909,-0.183902210654564,-0.199996707029798,-0.216711371335999,0.136408205462885,0.249528047452493,-0.160216858399684,-0.17696205424571,-0.216711371335999,0.407267503814531,0.284112505257591,0.180725145834822,-0.00289858549804989,-0.0266173139073225,-0.0888080770430002,0.110965112643339,0.355340995719542,0.186062688054808,0,0.116099394323333,-0.0422538475945569,-0.0322347383644789,0.0118773377011334,-0.0181287867324576,0.424671666378952,0.306346488963519,0.633215937462452,0.658148760665083,0.565593336204504,0.219613842946002,0.0165439045400353,0.0696943154418905,0.0442940299236797,0.0777431466071354,0.115218747278948,-0.0976488646879539,0,0.0458560385193656,-0.0469540455623709,0.0241370350596908,0.349463911860186,0.00147146928422126,0.234191250360128,-0.116917224039348,-0.0364627110127456,-0.00155490454909946,0.0717003181741795,0.0601039441198741,0.140613448656791,0.0978928981607211,-0.0045189351602884,0.104029858571349,-0.0774230074806792,-0.124567775847316,-0.118390915040448,0.240249148902568,0.145895961525052,0.167404849568002,0.392400955642977,-0.122456615066388,-0.0821734787784567,-0.159845540271596,0.248780620862113,0.178538385587276,-0.0225246862222558,0.146708839523974,0.151600218710053,0.271540375145001,0.174253988375182,-0.140694111135146,0.109555393476048,0.526068723599223,0.339468469277902,-0.14890623414022,-0.146969133463141,-0.147440359759191,-0.182294144502907,-0.104708438672077,-0.0988649404261179,-0.120954300884348,0.210040491835475,-0.216711371335999,-0.150808218756088,-0.187856655710561,-0.126088474143174,-0.141919466055318,-0.0754488242249318,-0.0775104830012339,-0.116015707904196,-0.161172110069306,0.0478780856723678,0.115484352469507,-0.216711371335999,-0.216711371335999,-0.235509134330268,-0.205994971230187,-0.29743422192708,-0.207171065244447,-0.216711371335999,-0.113498486938348,-0.199794855572901,-0.09314727629741,-0.0780566278580415,-0.0701120980542767,-0.0762240437962709,-0.0775059190853722,-0.111825066068536,0.119613434266808,-0.0310358546622835,0.409998024481988,0.282162945244983,-0.216711371335999,-0.233821047724106,-0.120275513999758,0.0177147007784209,0.0457505783270888,0.160554297217169,0.304454134756989,0.272919123555433,0.224094862276667,0.196865276411072,0.200839229308861,0.229458028470207,0.265594218387819,0.270445903231449,-0.142703805560451,-0.187663898896549,-0.0717192343601521,-0.0296226434201867,0.142506704078939,0.12914941188707,0.277238944469675,0.375598572329532,0.391553275057247,0.440110032689328,0.465613271991628,-0.094285892025407,-0.0359443193732906,-0.175594975299537,-0.00523746713359652,0.0741749571973969,0.104389938951611,0.27628038448232,0.0801976130028521,0.2603469992513,0.272636867902784,0.33370277800674,0.389555073835302,0.381488834102198,0.495744978654704,0.536186785713745,0.0666403488165788,-0.164291505577179,-0.204355384668187,-0.169972175602447,-0.127974624449581,-0.0818736411346084,0.0161490327876246,0.0845778747251071,-0.0195243350781498,-0.0407329583553047,0.0055000254114852,0.0964493185769695,0.0727224000307181,0.0242238480488721,-0.0293813750547014,-0.028090605289781,0.555437370328328,0.25038700471601,0.294865638507474,0.327587231097631,-0.102046301521304,-0.0449418349282034,-0.00309809608756817,-0.038195931288632,-0.0496771073777367,-0.066018555172442,-0.117574329973907,-0.123305707547231,0.0496655745091775,0.0653129493001072,-0.0720475813000681,0.173455248593667,0.0651669604338523,-0.145541895386308,-0.140761152723174,0.118061018999649,0.698636808362033,-0.126384402991408,0.171146881703773,0.500927001231516,0.594589627043054,0.529151765780197,0.21276656043244,0.306043137816311,0.311191691235768,0.586389222554697,0.662773315577571,0.627853557923985,0.348451727156321,-0.202503845881092,-0.138285111067818,-0.0891037946680195,-0.0130347693981161,0.0555108147588195,0.069028996564834,0.157390613205053,0.176940089512585,0.13457673695266,0.766745815735407,-0.0925787908778588,0.0223999557838002,-0.0580233696291956,-0.0663206430518903,0.0402096004507486,0.213181706519413,0.291832301949448,-0.0432633420920178,-0.0112755116490753,-0.0798674900630562,-0.0778604141656278,-0.131827850606202,-0.0542506258986244,-0.148533516274449,-0.169115613583326,-0.117674679987764,0.407415562219151,-0.216711371335999,-0.0891299294370238,-0.0607618743917162,0.0424775992456188,0.0442517753489884,0.160049182662361,0.179097493896521,0.330485068564932,0.19864111852236,0.55598539475146,-0.216711371335999,-0.187702495610204,-0.163287193469299,-0.156454268213147,-0.1574454703539,-0.139115637635426,-0.159578146519023,-0.116199955083947,-0.126365084132329,0.0056556782097324,-0.174001396809463,-0.0487313837829557,-0.190512241186826,-0.168562783694687,-0.156574685422482,-0.127899447504537,-0.138007621308121,-0.120427894978893,-0.1527069481236,-0.101800503969927,-0.135092067798828,-0.163453142630926,-0.157023933934275,-0.140280778165308,0.020681179372484,-0.032887085242143,-0.152883716740116,-0.145040043081033,-0.115211399054869,0.0763672843261616,0.351733737437673,0.0846500030785662,0.0983947704525217,0.732093775944139,0.0874832415644697,0.119225381117789,0.0876359286953601,0.108622710955593,0.158067216558725,0.127205811929287,0.30380046913089,0.168925357376805,0.18556464272608,0.0919641355899105,-0.399662227022351,-0.123728935766795,-0.169333577166717,-0.167580692212533,-0.299800789887145,-0.174603051819113,-0.123273570099636,-0.0499898668640342,-0.0701507339693712,-0.100993176388591,-0.0342861631384913,-0.0832379874996678,-0.0785457644984201,-0.0459881121731952,-0.0525121069624538,-0.108892040190247,-0.0627205205360075,-0.110286571313239,-0.0759234098821568,-0.0615261338719618,0.0341627298440315,-0.0313314574773375,-0.0667368254728795,-0.064491914317301,-0.0411032004998388,-0.0556020821410601,-0.073178946857422,-0.0347000318807998,-0.0682900163185095,-0.014774535823298,-0.0596707577278466,-0.104269446115576,0.0170685414949641,-0.0611678444873258,-0.0355102552356448,-0.0374623395085712,-0.0452068490879234,-0.0543294927115361,-0.0867977897538013,-0.038685660471812,-0.0689118377273756
|gostat_on_MCL_coexpression=GO:0051185;coenzyme transporter activity;0.00180792198542705;11416!GO:0008521;acetyl-CoA transporter activity;0.00180792198542705;11416!GO:0051184;cofactor transporter activity;0.00964040159283091;11416!GO:0005783;endoplasmic reticulum;0.011366522009135;14227,11416!GO:0003755;peptidyl-prolyl cis-trans isomerase activity;0.021072777579611;14227!GO:0016859;cis-trans isomerase activity;0.021072777579611;14227!
|gostat_on_MCL_coexpression=GO:0051185;coenzyme transporter activity;0.00180792198542705;11416!GO:0008521;acetyl-CoA transporter activity;0.00180792198542705;11416!GO:0051184;cofactor transporter activity;0.00964040159283091;11416!GO:0005783;endoplasmic reticulum;0.011366522009135;14227,11416!GO:0003755;peptidyl-prolyl cis-trans isomerase activity;0.021072777579611;14227!GO:0016859;cis-trans isomerase activity;0.021072777579611;14227!
|ontology_enrichment_celltype=
|ontology_enrichment_disease=
|ontology_enrichment_uberon=UBERON:0007023!2.88e-12!51;UBERON:0002100!3.97e-08!90;UBERON:0002365!2.78e-07!25;UBERON:0002330!2.78e-07!25;UBERON:0005256!2.78e-07!45;UBERON:0000467!6.09e-07!308;UBERON:0000480!6.09e-07!308;UBERON:0003104!7.89e-07!61;UBERON:0009142!7.89e-07!61;UBERON:0005177!9.06e-07!79
}}
}}

Revision as of 16:10, 11 October 2012


Phase1 CAGE Peaks

 Short description
Mm9::chr10:126558181..126558205,-p1@Os9
Mm9::chr19:7054910..7054971,-p1@Fkbp2
Mm9::chr3:63768456..63768471,-p4@Slc33a1
Mm9::chr3:63768479..63768492,-p3@Slc33a1
Mm9::chr3:63768493..63768526,-p1@Slc33a1
Mm9::chr3:63768528..63768546,-p2@Slc33a1
Mm9::chr3:88356765..88356777,-p2@Lamtor2


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:0051185coenzyme transporter activity0.00180792198542705
GO:0008521acetyl-CoA transporter activity0.00180792198542705
GO:0051184cofactor transporter activity0.00964040159283091
GO:0005783endoplasmic reticulum0.011366522009135
GO:0003755peptidyl-prolyl cis-trans isomerase activity0.021072777579611
GO:0016859cis-trans isomerase activity0.021072777579611



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><br>uberon_data<br><br>

Uber Anatomy
Ontology termp-valuen
adult organism2.88e-1251
trunk3.97e-0890
exocrine gland2.78e-0725
exocrine system2.78e-0725
trunk mesenchyme2.78e-0745
anatomical system6.09e-07308
anatomical group6.09e-07308
mesenchyme7.89e-0761
entire embryonic mesenchyme7.89e-0761
trunk region element9.06e-0779


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_mm9:1013&oldid=2153081"