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Coexpression cluster:C1081

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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 epithelium1.66e-1983
epithelial vesicle1.93e-1878
somite4.26e-1871
presomitic mesoderm4.26e-1871
presumptive segmental plate4.26e-1871
dermomyotome4.26e-1871
trunk paraxial mesoderm4.26e-1871
paraxial mesoderm1.24e-1772
presumptive paraxial mesoderm1.24e-1772
dense mesenchyme tissue3.51e-1773
skeletal muscle tissue1.33e-1662
striated muscle tissue1.33e-1662
myotome1.33e-1662
muscle tissue1.16e-1564
musculature1.16e-1564
musculature of body1.16e-1564
mesenchyme3.80e-14160
entire embryonic mesenchyme3.80e-14160
trunk mesenchyme4.85e-14122
organism subdivision1.32e-13264
cell layer5.60e-12309
epithelium5.76e-12306
nephron tubule epithelium6.85e-1210
unilaminar epithelium1.86e-11148
trunk3.69e-11199
artery1.86e-1042
arterial blood vessel1.86e-1042
arterial system1.86e-1042
pigment epithelium of eye8.48e-1011
epithelial tube9.93e-10117
blood vessel smooth muscle1.46e-0910
arterial system smooth muscle1.46e-0910
artery smooth muscle tissue1.46e-0910
aorta smooth muscle tissue1.46e-0910
systemic artery3.00e-0933
systemic arterial system3.00e-0933
smooth muscle tissue7.76e-0915
multi-tissue structure1.58e-08342
nephron epithelium2.48e-0815
renal tubule2.48e-0815
nephron tubule2.48e-0815
nephron2.48e-0815
uriniferous tubule2.48e-0815
nephrogenic mesenchyme2.48e-0815
female organism9.65e-0841
vasculature1.02e-0778
vascular system1.02e-0778
excretory tube1.37e-0716
kidney epithelium1.37e-0716
external ectoderm8.43e-078
Disease
Ontology termp-valuen
female reproductive organ cancer7.82e-1227
reproductive organ cancer1.48e-1029
ovarian cancer5.05e-1014


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.