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|ontology_enrichment_disease=DOID:0050687!3.50e-07!143;DOID:305!4.34e-07!106
|ontology_enrichment_disease=DOID:0050687!3.50e-07!143;DOID:305!4.34e-07!106
|ontology_enrichment_uberon=UBERON:0003914!5.95e-28!118;UBERON:0004872!2.52e-21!84;UBERON:0000490!2.98e-19!138;UBERON:0001009!6.07e-17!113;UBERON:0003104!2.02e-16!238;UBERON:0009142!2.02e-16!238;UBERON:0002100!4.91e-16!216;UBERON:0001048!9.92e-16!168;UBERON:0004535!1.65e-15!110;UBERON:0001981!3.75e-15!60;UBERON:0007500!3.75e-15!60;UBERON:0004537!3.75e-15!60;UBERON:0006965!3.75e-15!60;UBERON:0004921!4.91e-14!129;UBERON:0004185!4.91e-14!129;UBERON:0002049!5.88e-14!79;UBERON:0007798!5.88e-14!79;UBERON:0007100!8.34e-14!27;UBERON:0001637!3.16e-13!42;UBERON:0003509!3.16e-13!42;UBERON:0004572!3.16e-13!42;UBERON:0000481!3.39e-13!347;UBERON:0000466!1.27e-12!126;UBERON:0000055!2.16e-12!69;UBERON:0000948!5.48e-12!24;UBERON:0005498!5.48e-12!24;UBERON:0004140!5.48e-12!24;UBERON:0009881!5.48e-12!24;UBERON:0004141!5.48e-12!24;UBERON:0003084!5.48e-12!24;UBERON:0007005!5.48e-12!24;UBERON:0004139!5.48e-12!24;UBERON:0004291!5.48e-12!24;UBERON:0004119!9.18e-12!169;UBERON:0000925!9.18e-12!169;UBERON:0006595!9.18e-12!169;UBERON:0000119!9.60e-12!312;UBERON:0000477!1.18e-11!286;UBERON:0001007!1.62e-11!155;UBERON:0001555!1.62e-11!155;UBERON:0007026!1.62e-11!155;UBERON:0009569!1.68e-11!113;UBERON:0000483!1.69e-11!309;UBERON:0004111!3.71e-11!241;UBERON:0000025!8.55e-11!194;UBERON:0003103!1.02e-10!69;UBERON:0000926!1.24e-10!448;UBERON:0004120!1.24e-10!448;UBERON:0006603!1.24e-10!448;UBERON:0005256!3.58e-10!143;UBERON:0004573!5.66e-10!33;UBERON:0004571!5.66e-10!33;UBERON:0004458!1.44e-09!49;UBERON:0000077!1.72e-09!130;UBERON:0003929!4.75e-09!54;UBERON:0005911!6.61e-09!82;UBERON:0002323!6.72e-09!46;UBERON:0000468!1.53e-08!659;UBERON:0002385!1.82e-08!63;UBERON:0001015!1.82e-08!63;UBERON:0000383!1.82e-08!63;UBERON:0003886!2.10e-08!63;UBERON:0005177!4.12e-08!107;UBERON:0005156!4.26e-08!59;UBERON:0000990!4.26e-08!59;UBERON:0005409!5.76e-08!35;UBERON:0000464!9.36e-08!104;UBERON:0009856!1.06e-07!26;UBERON:0002417!1.13e-07!61;UBERON:0000916!1.13e-07!61;UBERON:0009497!1.18e-07!25;UBERON:0000015!1.18e-07!25;UBERON:0002423!1.18e-07!25;UBERON:0006235!1.18e-07!25;UBERON:0004161!1.18e-07!25;UBERON:0001134!1.24e-07!61;UBERON:0002036!1.24e-07!61;UBERON:0003082!1.24e-07!61;UBERON:0007499!1.35e-07!25;UBERON:0009854!3.15e-07!23;UBERON:0001041!3.42e-07!98;UBERON:0008835!3.98e-07!22;UBERON:0003894!3.98e-07!22;UBERON:0002553!7.31e-07!70;UBERON:0000160!8.22e-07!27
|ontology_enrichment_uberon=UBERON:0003914!5.95e-28!118;UBERON:0004872!2.52e-21!84;UBERON:0000490!2.98e-19!138;UBERON:0001009!6.07e-17!113;UBERON:0003104!2.02e-16!238;UBERON:0009142!2.02e-16!238;UBERON:0002100!4.91e-16!216;UBERON:0001048!9.92e-16!168;UBERON:0004535!1.65e-15!110;UBERON:0001981!3.75e-15!60;UBERON:0007500!3.75e-15!60;UBERON:0004537!3.75e-15!60;UBERON:0006965!3.75e-15!60;UBERON:0004921!4.91e-14!129;UBERON:0004185!4.91e-14!129;UBERON:0002049!5.88e-14!79;UBERON:0007798!5.88e-14!79;UBERON:0007100!8.34e-14!27;UBERON:0001637!3.16e-13!42;UBERON:0003509!3.16e-13!42;UBERON:0004572!3.16e-13!42;UBERON:0000481!3.39e-13!347;UBERON:0000466!1.27e-12!126;UBERON:0000055!2.16e-12!69;UBERON:0000948!5.48e-12!24;UBERON:0005498!5.48e-12!24;UBERON:0004140!5.48e-12!24;UBERON:0009881!5.48e-12!24;UBERON:0004141!5.48e-12!24;UBERON:0003084!5.48e-12!24;UBERON:0007005!5.48e-12!24;UBERON:0004139!5.48e-12!24;UBERON:0004291!5.48e-12!24;UBERON:0004119!9.18e-12!169;UBERON:0000925!9.18e-12!169;UBERON:0006595!9.18e-12!169;UBERON:0000119!9.60e-12!312;UBERON:0000477!1.18e-11!286;UBERON:0001007!1.62e-11!155;UBERON:0001555!1.62e-11!155;UBERON:0007026!1.62e-11!155;UBERON:0009569!1.68e-11!113;UBERON:0000483!1.69e-11!309;UBERON:0004111!3.71e-11!241;UBERON:0000025!8.55e-11!194;UBERON:0003103!1.02e-10!69;UBERON:0000926!1.24e-10!448;UBERON:0004120!1.24e-10!448;UBERON:0006603!1.24e-10!448;UBERON:0005256!3.58e-10!143;UBERON:0004573!5.66e-10!33;UBERON:0004571!5.66e-10!33;UBERON:0004458!1.44e-09!49;UBERON:0000077!1.72e-09!130;UBERON:0003929!4.75e-09!54;UBERON:0005911!6.61e-09!82;UBERON:0002323!6.72e-09!46;UBERON:0000468!1.53e-08!659;UBERON:0002385!1.82e-08!63;UBERON:0001015!1.82e-08!63;UBERON:0000383!1.82e-08!63;UBERON:0003886!2.10e-08!63;UBERON:0005177!4.12e-08!107;UBERON:0005156!4.26e-08!59;UBERON:0000990!4.26e-08!59;UBERON:0005409!5.76e-08!35;UBERON:0000464!9.36e-08!104;UBERON:0009856!1.06e-07!26;UBERON:0002417!1.13e-07!61;UBERON:0000916!1.13e-07!61;UBERON:0009497!1.18e-07!25;UBERON:0000015!1.18e-07!25;UBERON:0002423!1.18e-07!25;UBERON:0006235!1.18e-07!25;UBERON:0004161!1.18e-07!25;UBERON:0001134!1.24e-07!61;UBERON:0002036!1.24e-07!61;UBERON:0003082!1.24e-07!61;UBERON:0007499!1.35e-07!25;UBERON:0009854!3.15e-07!23;UBERON:0001041!3.42e-07!98;UBERON:0008835!3.98e-07!22;UBERON:0003894!3.98e-07!22;UBERON:0002553!7.31e-07!70;UBERON:0000160!8.22e-07!27
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}}
}}

Revision as of 12:13, 5 September 2012


Full id: C3708_stomach_colon_hepatoblastoma_ovary_heart_Hepatic_mesothelioma



Phase1 CAGE Peaks

Hg19::chr18:19749504..19749515,+p5@GATA6
Hg19::chr18:19749517..19749531,+p3@GATA6
Hg19::chr18:19749541..19749557,+p1@GATA6


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
epithelial tube5.95e-28118
splanchnic layer of lateral plate mesoderm2.52e-2184
unilaminar epithelium2.98e-19138
circulatory system6.07e-17113
mesenchyme2.02e-16238
entire embryonic mesenchyme2.02e-16238
trunk4.91e-16216
primordium9.92e-16168
cardiovascular system1.65e-15110
blood vessel3.75e-1560
epithelial tube open at both ends3.75e-1560
blood vasculature3.75e-1560
vascular cord3.75e-1560
subdivision of digestive tract4.91e-14129
endodermal part of digestive tract4.91e-14129
vasculature5.88e-1479
vascular system5.88e-1479
primary circulatory organ8.34e-1427
artery3.16e-1342
arterial blood vessel3.16e-1342
arterial system3.16e-1342
multi-tissue structure3.39e-13347
immaterial anatomical entity1.27e-12126
vessel2.16e-1269
heart5.48e-1224
primitive heart tube5.48e-1224
primary heart field5.48e-1224
anterior lateral plate mesoderm5.48e-1224
heart tube5.48e-1224
heart primordium5.48e-1224
cardiac mesoderm5.48e-1224
cardiogenic plate5.48e-1224
heart rudiment5.48e-1224
endoderm-derived structure9.18e-12169
endoderm9.18e-12169
presumptive endoderm9.18e-12169
cell layer9.60e-12312
anatomical cluster1.18e-11286
digestive system1.62e-11155
digestive tract1.62e-11155
primitive gut1.62e-11155
subdivision of trunk1.68e-11113
epithelium1.69e-11309
anatomical conduit3.71e-11241
tube8.55e-11194
compound organ1.02e-1069
mesoderm1.24e-10448
mesoderm-derived structure1.24e-10448
presumptive mesoderm1.24e-10448
trunk mesenchyme3.58e-10143
systemic artery5.66e-1033
systemic arterial system5.66e-1033
body cavity or lining1.44e-0949
mixed endoderm/mesoderm-derived structure1.72e-09130
gut epithelium4.75e-0954
endo-epithelium6.61e-0982
body cavity6.72e-0946
multi-cellular organism1.53e-08659
muscle tissue1.82e-0863
musculature1.82e-0863
musculature of body1.82e-0863
body cavity precursor2.10e-0863
trunk region element4.12e-08107
reproductive structure4.26e-0859
reproductive system4.26e-0859
gastrointestinal system5.76e-0835
anatomical space9.36e-08104
sac1.06e-0726
abdominal segment of trunk1.13e-0761
abdomen1.13e-0761
epithelium of foregut-midgut junction1.18e-0725
anatomical boundary1.18e-0725
hepatobiliary system1.18e-0725
foregut-midgut junction1.18e-0725
septum transversum1.18e-0725
skeletal muscle tissue1.24e-0761
striated muscle tissue1.24e-0761
myotome1.24e-0761
epithelial sac1.35e-0725
digestive tract diverticulum3.15e-0723
foregut3.42e-0798
hepatic diverticulum3.98e-0722
liver primordium3.98e-0722
anatomical cavity7.31e-0770

Disease
Ontology termp-valuen


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
CTBP2#1488362.71700033932814.049570681927e-060.000129614806144583
CTCF#1066435.360256373075030.0064925092527670.0279259986759085
E2F1#186934.907389214879320.008460985347239390.0325077014560694
E2F6#187635.017155731697390.00791769806886330.0321920219805354
EGR1#195834.988179094810140.008056488137383440.0320427877900982
FOXA1#3169311.08141974938550.000734755275698670.00580945614646781
FOXA2#3170324.63046375266526.68983856509345e-050.00107192397959465
RAD21#5885310.35503389545630.0009004912073565420.00663700784792589
SMC3#9126315.04493284493280.0002935825420371870.00308900535037495
ZBTB7A#5134137.35190930787590.002516255860282270.0140090221116275
ZNF263#1012738.221841637010680.001799043925565870.010934028662836



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.

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