Personal tools

Coexpression cluster:C1081: Difference between revisions

From FANTOM5_SSTAR

Jump to: navigation, search
No edit summary
No edit summary
Line 1: Line 1:
{{Coexpression_clusters
{{Coexpression_clusters
|coexpression_dpi_cluster_scores_median=0,0,0,0,0,0,0,0,0,0.134519599302302,0,0,0,0,0,0.424824925536393,0.204850754147253,0.314584260974953,0.295757399657426,0.116060534155016,0.20736559616021,0.0592075530067425,0,0.052541902481501,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.770488333397846,0.66213804552345,0.532027402250739,0,0.134908379262287,0.0684845834598835,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.066092411293831,0.062695183774285,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.049020766616602,0.83211420101552,0.054761705771024,0,0,0,0,0,0.0274425697329547,0,0,0,0,0.210671632826821,0.0980150742012185,0.158547908372467,0.146122507795092,0.0325793193727833,0.0570765567424092,0.0403410472145656,0.0503156775564332,0,0,0,0,0,0,0,0.095743424769262,0,0,0,0.0466637702013911,0,0,0,0,0.0212980973874494,0,0,0,0,0,0,0,0.131942369721337,0.0208447609871159,0,0.372100090958474,0.626859815840307,0.405050468729159,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.522706305599597,0.42350189169948,0,0,0,0,0,0.658147593449953,0.570763234770558,0.341365472322262,0.0843640151307332,0,0,0,0,0,0,0,0.519871804489719,0.942944318771109,0.562302464905357,0.429464618506101,0.435902898681449,0.194060604508973,1.23963115743003,0.502075324944566,0.081825314342242,0.0584715597507662,0.025815943111336,0,0,0,0,0,0,0,0,0,0.0832035458531897,0.0998682073631928,0,0.347958828004523,0,0,0.0497034598730432,0,0.0512892538882835,0,0,0,0.507466762558563,0,0,0.279739502385768,0.43823640236081,0.0937382711583209,0,0,0,0,0,0.384956857687085,0.396909736642273,0,0.234578994742691,0,0,0,0,0.0491651531067128,0,0,0,0,0,0,0,0,0,0.10423609841563,0,0,0,0,0.204633286556638,0,0,0,0,0.0528825107731167,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.13547571670334,0.13197886088098,0.250355174839859,0.245471557086762,0.179821069527637,0,0.486372839069143,0,0.109158283055364,0.134872421810318,0.0535103765953433,0.656111260685126,1.25764506556586,0.550916377895741,0.561150067855049,1.30780668498168,0,0,0.358946703964257,0,0.58970203774352,0.389930934587635,0.552220838697755,0.343969611997277,0.570161852709568,0,0,0.213812068619049,0,0.209078268684516,0,0,0,0,0,0,0.23662619602614,0.140815361876059,0.0310094911974069,0.226225959294238,0.0845192582018698,0,0.166763963661027,0,0.27712758334576,0,0.0260799816909174,0,0.504005344265145,0.526003702746753,0.114845690176913,0.162539149315186,0.364648355903264,0.43772932056948,0.337335346799416,0.228291431364475,0.0687021194498525,0.144921324785311,0,0.0494771483328809,0,0.252475627103128,0,0.0718350632709503,0.0526762288773065,0.111662364707184,0.246240010603137,0,0.0763365308398045,0,0.0862178272736605,0,0.0277847031035153,0,0,0.190714085371158,0.366773604248443,0.273441543989027,0.099160193832824,0,0.583634155705003,0.209420369907932,0.230042234066997,0.0547593574454625,0.0407008327132364,0.712922843676143,0.622227410485666,0,0,0,0,0,0,0,0,0.295190521474455,0,0,0.886682236855627,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.421016048296141,0.262566715197606,0,0,0,0,0,0.652183683508506,0,0,0,0,0,0.0615538724636455,0,0,0.79895039568985,0,0,0,0,0,0,0,0,0,0,0,0,0.049192686821072,0,0,0,0,0,0,0,0,0,0,0,0,0,0.0680099902262517,0,0,0,0,0.120507194438142,0,0,0,0,0,0,0,0,0,0.650334534338264,0.538421371392621,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.118573193298914,0,0.152227364170701,0.0958231165983405,0,0,0.0529825487431388,0,0,0,0,0,0,0,0,0.443758357640639,0.527320297230652,0,0,0.847123110675552,0,0,0,0,0,0.903276960350252,0.790248283922551,0,0.59113441721134,0.638936603578328,0.0614030465899221,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.63367651392588,0,0.141082865275267,0,0,0,0.460561674642386,0.555416659434928,0.761455318123432,0.55225443129833,0.0501432050255539,0.0978430549802301,0,0,0,0,0,0.153861208311634,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.0511449590802371,0,0,1.04727491884425,0,0,0.177778779093488,0.0456071250605978,0.324202530144468,0.167453557137287,0.0974544165143517,0.276418423478184,0.353285247400758,0.111817538862064,0.207979577448149,0.180610727311515,0.191870252417706,0.278663583939319,0.229658415303184,0.206488940719549,0.435323620843983,0.449330519370181,0.0874552766421693,0.330903729395183,0.148254195206626,0.278882349047568,0.25175982005278,0.331950900973002,0.243415260296774,0.378715510849081,0,0,0,0.169796621955272,0,0,0,0.159750597443228,0,0,0,0,0.131419206145359,0.0766091494124484,0.258518528515913,0.444343759513538,0,0.160720669161301,0,0,0,0,0,0.0954388822399226,0.691584498846683,0,0,0,0,0,0.0284294730812996,0.210071535945973,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.0237397835175619,0.140313822677655,0.113989594099369,0,0,0.302877316018104,0,0,0,1.44545716677907,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.300971168449577,0,0,0,0.158554838819797,0,0,0,0,0.267443846795751,0.386187635825411,0,0,0,0,0,0,0,0,0,0.215176302390666,0.202547725778806,0,0.339710973964598,0.464630025450376,0.464053823959474,0,0.020330879149429,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.703387193765102,0.107283341190944,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.15565835517162,0,0,0,0,0,0,0,0.0939621217668335,0,0,0,0,0,0,0,0,0
|full_id=C1081_papillotubular_Renal_Mast_giant_meningioma_mucinous_gall
|full_id=C1081_papillotubular_Renal_Mast_giant_meningioma_mucinous_gall
|id=C1081
|id=C1081

Revision as of 13:31, 12 September 2012


Full id: C1081_papillotubular_Renal_Mast_giant_meningioma_mucinous_gall



Phase1 CAGE Peaks

Hg19::chr3:98699880..98699906,+p2@ENST00000473756
Hg19::chr3:98699909..98699935,+p3@ENST00000473756
Hg19::chr3:98700032..98700043,+p7@ENST00000473756
Hg19::chr3:98700102..98700111,+p8@ENST00000473756
Hg19::chr3:98700113..98700136,+p4@ENST00000473756
Hg19::chr3:98700139..98700150,+p6@ENST00000473756
Hg19::chr3:98700171..98700194,+p1@ENST00000473756
Hg19::chr3:98700196..98700204,+p9@ENST00000473756


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

No results for this coexpression

Enriched Gene Ontology terms on this co-expression cluster<b>Summary:</b> Results for GOStat analysis on co-expressed clusters. Each cluster with promoters mapping to at least two different genes was analysed with GOStat (PMID: 14962934) with default parameter. <br><b>Analyst:</b> Erik Arner<br><br>link to source dataset<br>data

No GOStat results

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>

Uber Anatomy
Ontology termp-valuen
multilaminar epithelium7.21e-1982
trunk mesenchyme1.11e-17143
dermomyotome5.19e-1770
somite2.42e-1583
paraxial mesoderm2.42e-1583
presomitic mesoderm2.42e-1583
presumptive segmental plate2.42e-1583
trunk paraxial mesoderm2.42e-1583
presumptive paraxial mesoderm2.42e-1583
skeletal muscle tissue1.42e-1461
striated muscle tissue1.42e-1461
myotome1.42e-1461
muscle tissue2.98e-1463
musculature2.98e-1463
musculature of body2.98e-1463
cell layer1.40e-12312
epithelium4.46e-12309
unilaminar epithelium2.80e-10138
artery1.14e-0942
arterial blood vessel1.14e-0942
arterial system1.14e-0942
epithelial tube1.40e-09118
trunk2.62e-09216
vasculature8.77e-0979
vascular system8.77e-0979
systemic artery1.32e-0833
systemic arterial system1.32e-0833
pigment epithelium of eye1.05e-0711
organism subdivision1.11e-07365
mesenchyme1.25e-07238
entire embryonic mesenchyme1.25e-07238
vessel7.59e-0769
blood vessel smooth muscle8.24e-0710
arterial system smooth muscle8.24e-0710
artery smooth muscle tissue8.24e-0710
aorta smooth muscle tissue8.24e-0710
multi-tissue structure9.47e-07347
Disease
Ontology termp-valuen
female reproductive organ cancer2.08e-0827
reproductive organ cancer1.11e-0729
ovarian cancer2.81e-0714


Overrepresented TFBS (DNA) motifs on this co-expression cluster<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}}}



ENCODE TF ChIP-seq peak enrichment analysis<b>Summary:</b> For each TF and each co-expression cluster, the number of promoters with ENCODE TF ChIP signal was compared with the rest of promoters from the robust set using Fisher's exact test. Clusters with significant ChIP enrichment (q <= 0.05) after Benjamini-Hochberg correction were retained. <br><b>Analyst:</b> Erik Arner<br><br>link to source dataset<br><br>data

(#promoters = Number of promoters in this coexpression cluster that have ChIP signal of the TF)

TF#promotersEnrichmentp-valueq-value
BATF#10538824.35780179230368.04188698177306e-121.0168119061615e-09
BCL11A#53335828.36945510360712.37350757777029e-123.22349490136218e-10
EBF1#187988.9064668465692.52252859723395e-081.75868066866833e-06
EP300#203386.77394172622322.25366016107097e-071.19054129267623e-05
FOS#235388.99795530889442.32446530602145e-081.63698470732012e-06
GATA2#2624812.7449317335541.43392692074517e-091.28107693477934e-07
JUND#372786.994663941871031.74369580801501e-079.5746501836635e-06
MEF2A#4205818.74323090964416.54751754202692e-117.25149718527836e-09
NFKB1#479085.488063424193841.21437192632393e-064.90819619246691e-05
POLR2A#543082.147453176558070.002210725788971910.012723795363961
SP1#666785.69838137814098.98832477855329e-073.86468362102646e-05
TCF12#6938810.63446490218646.10437051371448e-094.83346741532848e-07
USF1#739186.361499277207963.72538670743375e-071.83180631985722e-05



Relative expression of the co-expression cluster<b>Summary:</b>Co-expression clusters are compared against FANTOM5 samples to obtain relative expression. <br><b>Analyst:</b>NA<br><br>link to data source<br> data

This analysis result is provided for C0 - C305 clusters.

Retrieved from "http://f5-webapp4.gsc.riken.jp/resource_browser/index.php?title=Coexpression_cluster:C1081&oldid=2135607"