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Coexpression cluster:C267

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Full id: C267_pancreatic_placenta_choriocarcinoma_testicular_teratocarcinoma_chorionic_clear



Phase1 CAGE Peaks

Hg19::chr11:2314912..2314928,-p@chr11:2314912..2314928
-
Hg19::chr12:122107309..122107329,-p6@MORN3
Hg19::chr12:122107501..122107512,-p5@MORN3
Hg19::chr12:122107518..122107540,-p4@MORN3
Hg19::chr12:19556947..19556956,+p14@AEBP2
Hg19::chr12:19556960..19556982,+p10@AEBP2
Hg19::chr12:19556998..19557013,+p6@AEBP2
Hg19::chr12:19571344..19571348,+p@chr12:19571344..19571348
+
Hg19::chr12:68185216..68185218,+p@chr12:68185216..68185218
+
Hg19::chr12:71771004..71771010,+p@chr12:71771004..71771010
+
Hg19::chr12:78959588..78959592,+p@chr12:78959588..78959592
+
Hg19::chr12:79954988..79954992,-p@chr12:79954988..79954992
-
Hg19::chr13:52585580..52585613,-p3@ATP7B
Hg19::chr14:70278539..70278553,+p@chr14:70278539..70278553
+
Hg19::chr16:80654831..80654863,-p@chr16:80654831..80654863
-
Hg19::chr16:87983093..87983105,+p@chr16:87983093..87983105
+
Hg19::chr19:15162579..15162588,+p5@CASP14
Hg19::chr19:34810421..34810430,+p@chr19:34810421..34810430
+
Hg19::chr19:3914342..3914345,-p@chr19:3914342..3914345
-
Hg19::chr19:54180020..54180022,+p@chr19:54180020..54180022
+
Hg19::chr19:54183760..54183765,+p@chr19:54183760..54183765
+
Hg19::chr19:55488197..55488199,+p@chr19:55488197..55488199
+
Hg19::chr1:160990524..160990546,-p@chr1:160990524..160990546
-
Hg19::chr1:92371839..92371867,-p11@TGFBR3
Hg19::chr20:62439413..62439432,+p1@ENST00000435912
Hg19::chr21:44345659..44345670,-p3@uc002zco.2
Hg19::chr2:126468524..126468553,+p3@ENST00000430692
Hg19::chr2:131058236..131058275,-p@chr2:131058236..131058275
-
Hg19::chr3:133174942..133174952,-p4@ENST00000515542
p4@uc003epo.2
Hg19::chr3:176634728..176634764,-p@chr3:176634728..176634764
-
Hg19::chr3:36853841..36853850,-p@chr3:36853841..36853850
-
Hg19::chr3:48519267..48519301,-p@chr3:48519267..48519301
-
Hg19::chr4:25452431..25452441,-p@chr4:25452431..25452441
-
Hg19::chr4:25452454..25452465,-p@chr4:25452454..25452465
-
Hg19::chr4:8582113..8582129,+p4@GPR78
Hg19::chr5:172721722..172721748,-p1@ENST00000501670
Hg19::chr6:107009148..107009180,+p@chr6:107009148..107009180
+
Hg19::chr6:157357555..157357574,+p@chr6:157357555..157357574
+
Hg19::chr6:158121413..158121421,+p@chr6:158121413..158121421
+
Hg19::chr6:53007664..53007669,-p@chr6:53007664..53007669
-
Hg19::chr7:92107256..92107265,-p@chr7:92107256..92107265
-
Hg19::chr7:99321090..99321095,+p@chr7:99321090..99321095
+
Hg19::chr8:143844567..143844588,+p2@ENST00000523657
Hg19::chr8:42360015..42360030,-p20@SLC20A2
Hg19::chr9:133968754..133968762,-p@chr9:133968754..133968762
-
Hg19::chr9:78949005..78949024,-p@chr9:78949005..78949024
-
Hg19::chrX:119709377..119709392,-p16@CUL4B
Hg19::chrX:135618258..135618269,+p6@VGLL1
Hg19::chrX:152990686..152990697,+p6@ABCD1


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

GO IDGO nameFDR corrected p-value
GO:0015919peroxisomal membrane transport0.0309961144471918
GO:0015677copper ion import0.0309961144471918
GO:0022804active transmembrane transporter activity0.0425695048000345
GO:0005315inorganic phosphate transmembrane transporter activity0.0425695048000345
GO:0043682copper-transporting ATPase activity0.0425695048000345
GO:0004008copper-exporting ATPase activity0.0425695048000345
GO:0046688response to copper ion0.0425695048000345
GO:0005436sodium:phosphate symporter activity0.0425695048000345
GO:0006878cellular copper ion homeostasis0.0425695048000345
GO:0042626ATPase activity, coupled to transmembrane movement of substances0.0425695048000345
GO:0043492ATPase activity, coupled to movement of substances0.0425695048000345
GO:0016820hydrolase activity, acting on acid anhydrides, catalyzing transmembrane movement of substances0.0425695048000345
GO:0051208sequestering of calcium ion0.0425695048000345
GO:0015399primary active transmembrane transporter activity0.0425695048000345
GO:0015405P-P-bond-hydrolysis-driven transmembrane transporter activity0.0425695048000345
GO:0055070copper ion homeostasis0.0425695048000345
GO:0051238sequestering of metal ion0.0450057037700196
GO:0015114phosphate transmembrane transporter activity0.0450057037700196
GO:0005375copper ion transmembrane transporter activity0.0450057037700196
GO:0005779integral to peroxisomal membrane0.0450057037700196
GO:0031231intrinsic to peroxisomal membrane0.0450057037700196
GO:0043574peroxisomal transport0.0450057037700196
GO:0031461cullin-RING ubiquitin ligase complex0.0494829688645146
GO:0006825copper ion transport0.0494829688645146
GO:0031625ubiquitin protein ligase binding0.0494829688645146
GO:0005802trans-Golgi network0.0499528863193797



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>

Cell Type
Ontology termp-valuen
epithelial cell7.54e-34254
endodermal cell1.34e-1259
endo-epithelial cell3.89e-1143
squamous epithelial cell1.98e-0862
Uber Anatomy
Ontology termp-valuen
endoderm-derived structure4.29e-10169
endoderm4.29e-10169
presumptive endoderm4.29e-10169
endo-epithelium1.94e-0982
digestive system1.21e-07155
digestive tract1.21e-07155
primitive gut1.21e-07155
subdivision of digestive tract1.55e-07129
endodermal part of digestive tract1.55e-07129
mixed endoderm/mesoderm-derived structure3.34e-07130
foregut8.25e-0798
Disease
Ontology termp-valuen
carcinoma1.60e-23106
cell type cancer5.43e-23143
disease of cellular proliferation1.42e-16239
cancer2.04e-16235
adenocarcinoma7.13e-0825


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
GATA3#262595.002625453364376.53641175906428e-050.00106101384473875



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

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