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Coexpression cluster:C326

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Full id: C326_bile_choriocarcinoma_giant_lung_mucinous_glassy_malignant



Phase1 CAGE Peaks

Hg19::chr10:128112935..128112946,+p@chr10:128112935..128112946
+
Hg19::chr10:5075825..5075836,+p@chr10:5075825..5075836
+
Hg19::chr10:5075837..5075848,+p@chr10:5075837..5075848
+
Hg19::chr11:110129024..110129031,-p19@RDX
Hg19::chr11:110129088..110129096,-p18@RDX
Hg19::chr11:41899631..41899640,-p@chr11:41899631..41899640
-
Hg19::chr12:132340327..132340336,+p@chr12:132340327..132340336
+
Hg19::chr12:15815672..15815681,-p27@EPS8
Hg19::chr12:15815704..15815714,-p24@EPS8
Hg19::chr12:19842219..19842224,+p@chr12:19842219..19842224
+
Hg19::chr12:19842253..19842299,+p@chr12:19842253..19842299
+
Hg19::chr12:19842421..19842428,+p@chr12:19842421..19842428
+
Hg19::chr12:19842430..19842437,+p@chr12:19842430..19842437
+
Hg19::chr12:19842439..19842446,+p@chr12:19842439..19842446
+
Hg19::chr14:32476072..32476090,+p1@ENST00000556949
Hg19::chr15:75682218..75682225,-p@chr15:75682218..75682225
-
Hg19::chr15:75682252..75682263,-p@chr15:75682252..75682263
-
Hg19::chr15:89659033..89659044,+p@chr15:89659033..89659044
+
Hg19::chr17:77809975..77809980,-p@chr17:77809975..77809980
-
Hg19::chr19:16023475..16023478,-p@chr19:16023475..16023478
-
Hg19::chr1:164600166..164600175,+p47@PBX1
Hg19::chr1:164600184..164600191,+p38@PBX1
Hg19::chr1:197964894..197964906,-p@chr1:197964894..197964906
-
Hg19::chr1:241804444..241804477,-p@chr1:241804444..241804477
-
Hg19::chr2:239198771..239198784,-p7@PER2
Hg19::chr3:192362159..192362169,-p@chr3:192362159..192362169
-
Hg19::chr4:178243549..178243558,+p@chr4:178243549..178243558
+
Hg19::chr5:66178685..66178698,+p@chr5:66178685..66178698
+
Hg19::chr5:66178707..66178713,+p@chr5:66178707..66178713
+
Hg19::chr6:79960170..79960171,-p@chr6:79960170..79960171
-
Hg19::chr7:128543063..128543091,-p@chr7:128543063..128543091
-
Hg19::chr7:143953304..143953314,-p1@uc003wed.2
Hg19::chr7:143953331..143953349,-p1@OR2A20P
Hg19::chr7:389967..389980,+p@chr7:389967..389980
+
Hg19::chr9:131397542..131397587,-p@chr9:131397542..131397587
-


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:0030033microvillus biogenesis0.0173045506176316
GO:0032528microvillus organization and biogenesis0.0173045506176316
GO:0051123transcriptional preinitiation complex assembly0.0173045506176316
GO:0045898regulation of transcriptional preinitiation complex assembly0.0173045506176316
GO:0032420stereocilium0.0173045506176316
GO:0032421stereocilium bundle0.0173045506176316
GO:0045176apical protein localization0.0188726906492033
GO:0030175filopodium0.0188726906492033
GO:0008105asymmetric protein localization0.0188726906492033
GO:0007016cytoskeletal anchoring0.0188726906492033
GO:0006700C21-steroid hormone biosynthetic process0.0188726906492033
GO:0008207C21-steroid hormone metabolic process0.0198852996184453
GO:0005902microvillus0.0198852996184453
GO:0051693actin filament capping0.0198852996184453
GO:0007530sex determination0.0198852996184453
GO:0051016barbed-end actin filament capping0.0198852996184453
GO:0030835negative regulation of actin filament depolymerization0.0198852996184453
GO:0030902hindbrain development0.0198852996184453
GO:0030834regulation of actin filament depolymerization0.0198852996184453
GO:0030042actin filament depolymerization0.0198852996184453
GO:0007623circadian rhythm0.023872501376074
GO:0007173epidermal growth factor receptor signaling pathway0.0259258954015117
GO:0030027lamellipodium0.0261884710132444
GO:0005515protein binding0.0261884710132444
GO:0042446hormone biosynthetic process0.0261884710132444
GO:0001726ruffle0.0261884710132444
GO:0008064regulation of actin polymerization and/or depolymerization0.0261884710132444
GO:0051261protein depolymerization0.0261884710132444
GO:0030832regulation of actin filament length0.0261884710132444
GO:0032535regulation of cellular component size0.0261884710132444
GO:0032956regulation of actin cytoskeleton organization and biogenesis0.0261884710132444
GO:0005070SH3/SH2 adaptor activity0.0264473229556302
GO:0051129negative regulation of cellular component organization and biogenesis0.0270318444045401
GO:0051493regulation of cytoskeleton organization and biogenesis0.0270318444045401
GO:0033043regulation of organelle organization and biogenesis0.0270318444045401
GO:0019222regulation of metabolic process0.0270318444045401
GO:0060090molecular adaptor activity0.0277109664806096
GO:0008154actin polymerization and/or depolymerization0.0277109664806096
GO:0031252leading edge0.0318538779589705
GO:0045177apical part of cell0.0356548518296873
GO:0003006reproductive developmental process0.0356548518296873
GO:0042445hormone metabolic process0.0356548518296873
GO:0006694steroid biosynthetic process0.0356548518296873
GO:0030674protein binding, bridging0.0356548518296873
GO:0051128regulation of cellular component organization and biogenesis0.0382952347115228
GO:0051248negative regulation of protein metabolic process0.0389543544901542
GO:0019898extrinsic to membrane0.0392201151579407
GO:0050954sensory perception of mechanical stimulus0.0463576165769469
GO:0007605sensory perception of sound0.0463576165769469
GO:0007420brain development0.0476834017488412
GO:0050794regulation of cellular process0.0476834017488412



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 cell7.14e-11254
endodermal cell9.92e-1159
endo-epithelial cell8.73e-0943
Disease
Ontology termp-valuen
carcinoma2.22e-28106
cell type cancer3.22e-25143
disease of cellular proliferation4.71e-18239
cancer5.37e-18235
adenocarcinoma1.62e-1025
squamous cell carcinoma9.79e-0814


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
CEBPB#1051153.416206125353498.07454372054656e-060.000224281189263341
EP300#2033142.709576690489280.0002469507419952580.00268491448503464
FOS#2353112.827928811366810.001038395056170170.00734350902433348
JUN#3725134.647622271439211.47511420509808e-065.69325397140569e-05
JUND#3727142.797865576748410.0001748265937413490.00212681591424027
NR3C1#2908104.278006666049446.83167969732869e-050.00109030225536264
POLR3A#11128219.37897771952820.00484166966546120.0226915786300082
STAT3#6774123.606673713310035.5685080397802e-050.000940746378464257



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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