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Coexpression cluster:C223

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Full id: C223_Chondrocyte_basal_renal_Fibroblast_Smooth_spindle_Synoviocyte



Phase1 CAGE Peaks

  Short description
Hg19::chr16:16235190..16235222,+ p3@ABCC1
Hg19::chr16:367222..367228,+ p@chr16:367222..367228
+
Hg19::chr16:66906996..66906997,- p@chr16:66906996..66906997
-
Hg19::chr1:203148096..203148127,- p@chr1:203148096..203148127
-
Hg19::chr7:150824026..150824027,- p@chr7:150824026..150824027
-
Hg19::chr7:45951982..45952024,- p@chr7:45951982..45952024
-
Hg19::chr7:45952071..45952083,- p@chr7:45952071..45952083
-
Hg19::chr7:45952219..45952234,+ p@chr7:45952219..45952234
+
Hg19::chr7:45952362..45952373,- p25@IGFBP3
Hg19::chr7:45952409..45952422,+ p@chr7:45952409..45952422
+
Hg19::chr7:45952418..45952432,- p11@IGFBP3
Hg19::chr7:45952439..45952454,- p10@IGFBP3
Hg19::chr7:45952448..45952473,+ +
p@chr7:45952448..45952473
Hg19::chr7:45952458..45952470,- p12@IGFBP3
Hg19::chr7:45952526..45952533,- p32@IGFBP3
Hg19::chr7:45952542..45952547,- p31@IGFBP3
Hg19::chr7:45952555..45952566,- p18@IGFBP3
Hg19::chr7:45952575..45952582,- p26@IGFBP3
Hg19::chr7:45952609..45952694,+ p@chr7:45952609..45952694
+
Hg19::chr7:45952626..45952637,- p23@IGFBP3
Hg19::chr7:45952643..45952654,- p22@IGFBP3
Hg19::chr7:45952665..45952679,- p8@IGFBP3
Hg19::chr7:45952690..45952701,- p21@IGFBP3
Hg19::chr7:45952705..45952723,- p9@IGFBP3
Hg19::chr7:45952772..45952808,+ p@chr7:45952772..45952808
+
Hg19::chr7:45952836..45952875,+ p@chr7:45952836..45952875
+
Hg19::chr7:45952925..45952936,- p14@IGFBP3
Hg19::chr7:45952960..45952978,- p16@IGFBP3
Hg19::chr7:45952985..45952996,- p19@IGFBP3
Hg19::chr7:45953003..45953022,- p17@IGFBP3
Hg19::chr7:45953004..45953071,+ p@chr7:45953004..45953071
+
Hg19::chr7:45953044..45953078,- p2@IGFBP3
Hg19::chr7:45953080..45953100,- p7@IGFBP3
Hg19::chr7:45953092..45953099,+ p@chr7:45953092..45953099
+
Hg19::chr7:45953113..45953132,- p13@IGFBP3
Hg19::chr7:45953149..45953156,- p24@IGFBP3
Hg19::chr7:45953152..45953169,+ +
p@chr7:45953152..45953169
Hg19::chr7:45953215..45953229,- p@chr7:45953215..45953229
-
Hg19::chr7:45953243..45953254,- p@chr7:45953243..45953254
-
Hg19::chr7:45953266..45953277,- p@chr7:45953266..45953277
-
Hg19::chr7:45953287..45953301,- p@chr7:45953287..45953301
-
Hg19::chr7:45953320..45953329,+ p@chr7:45953320..45953329
+
Hg19::chr7:45953339..45953442,- p@chr7:45953339..45953442
-
Hg19::chr7:45953356..45953389,+ p@chr7:45953356..45953389
+
Hg19::chr7:45954407..45954428,+ p@chr7:45954407..45954428
+
Hg19::chr7:45954422..45954464,- p4@IGFBP3
Hg19::chr7:45954467..45954535,- p6@IGFBP3
Hg19::chr7:45954480..45954494,+ p@chr7:45954480..45954494
+
Hg19::chr7:45954539..45954548,- p27@IGFBP3
Hg19::chr7:45956182..45956215,+ p@chr7:45956182..45956215
+
Hg19::chr7:45956182..45956271,- p5@IGFBP3
Hg19::chr7:45956222..45956246,+ p@chr7:45956222..45956246
+
Hg19::chr7:45956805..45956831,+ +
p@chr7:45956805..45956831
Hg19::chr7:45956835..45956852,- p@chr7:45956835..45956852
-
Hg19::chr7:45956836..45956919,+ p@chr7:45956836..45956919
+
Hg19::chr7:45956856..45957005,- p3@IGFBP3
Hg19::chr7:45956931..45956944,+ p@chr7:45956931..45956944
+
Hg19::chr7:45956964..45956971,+ p@chr7:45956964..45956971
+
Hg19::chr7:45956988..45956995,+ p@chr7:45956988..45956995
+
Hg19::chr7:45957006..45957009,+ p@chr7:45957006..45957009
+
Hg19::chr7:45957011..45957025,- p15@IGFBP3
Hg19::chr7:45957026..45957035,- p28@IGFBP3
Hg19::chr7:45960456..45960484,+ p@chr7:45960456..45960484
+
Hg19::chr7:45960675..45960686,+ p@chr7:45960675..45960686
+
Hg19::chr7:45960863..45960877,- p1@IGFBP3


Enriched pathways on this co-expression clusterSummary:
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.
Analyst: Emmanuel Dimont

link to source dataset
data


No results for this coexpression

Enriched Gene Ontology terms on this co-expression clusterSummary: 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.
Analyst: Erik Arner

link to source dataset
data


GO IDGO nameFDR corrected p-value
GO:0008160protein tyrosine phosphatase activator activity0.0107528462670886
GO:0045663positive regulation of myoblast differentiation0.0107528462670886
GO:0045661regulation of myoblast differentiation0.0107528462670886
GO:0033239negative regulation of amine metabolic process0.0107528462670886
GO:0001933negative regulation of protein amino acid phosphorylation0.0107528462670886
GO:0045763negative regulation of amino acid metabolic process0.0107528462670886
GO:0019211phosphatase activator activity0.0126724377484379
GO:0045445myoblast differentiation0.0236762645983259
GO:0005520insulin-like growth factor binding0.0236762645983259
GO:0048741skeletal muscle fiber development0.0236762645983259
GO:0048747muscle fiber development0.0236762645983259
GO:0001932regulation of protein amino acid phosphorylation0.0236762645983259
GO:0033238regulation of amine metabolic process0.0236762645983259
GO:0042692muscle cell differentiation0.0236762645983259
GO:0006521regulation of amino acid metabolic process0.0236762645983259
GO:0045597positive regulation of cell differentiation0.0236762645983259
GO:0042493response to drug0.0252709154337371
GO:0042325regulation of phosphorylation0.0252709154337371
GO:0007519skeletal muscle development0.0252709154337371
GO:0051094positive regulation of developmental process0.0252709154337371
GO:0051174regulation of phosphorus metabolic process0.0252709154337371
GO:0019220regulation of phosphate metabolic process0.0252709154337371
GO:0019888protein phosphatase regulator activity0.0275241544507314
GO:0019208phosphatase regulator activity0.0275241544507314
GO:0014706striated muscle development0.0275729500161464
GO:0019838growth factor binding0.0275729500161464
GO:0009968negative regulation of signal transduction0.0310198813992766
GO:0045595regulation of cell differentiation0.0413922342778986
GO:0001558regulation of cell growth0.0449485937362989
GO:0007517muscle development0.0461256189118645



Enriched sample ontology terms on this co-expression clusterSummary: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. Analyst: Hideya Kawaji

links to source dataset

cell_data
uberon_data
disease_data


Cell Type
Ontology termp-valuen
fibroblast9.85e-1576
skin fibroblast1.91e-1223
GAG secreting cell6.41e-109
carbohydrate secreting cell6.41e-109
stromal cell4.77e-0928
preadipocyte5.85e-0912
collagen secreting cell3.40e-086
chondroblast3.40e-086
chondrocyte3.40e-086
extracellular matrix secreting cell5.95e-0715
Uber Anatomy
Ontology termp-valuen
cavity lining7.98e-1012
serous membrane7.98e-1012
omentum8.72e-106
peritoneum8.72e-106
abdominal cavity8.72e-106
visceral peritoneum8.72e-106
extraembryonic membrane5.83e-0814
membranous layer5.83e-0814
chorion1.14e-077
skin of body2.62e-0741
integument6.37e-0746
integumental system6.37e-0746
Disease
Ontology termp-valuen
musculoskeletal system disease1.52e-095
myotonic disease1.52e-095
muscle tissue disease1.52e-095
myopathy1.52e-095
muscular disease1.52e-095
myotonic dystrophy1.52e-095


Overrepresented TFBS (DNA) motifs on this co-expression clusterSummary: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. Analyst: Michiel de Hoon

link to source data
Novel motifs
data

Jaspar motifs
data


Novel motifs



JASPAR motifs

Motifs-log10(p-value)

{{{tfbs_overrepresentation_jaspar}}}



ENCODE TF ChIP-seq peak enrichment analysisSummary: 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.
Analyst: Erik Arner

link to source dataset

data


No analysis results for this cluster

Relative expression of the co-expression clusterSummary:Co-expression clusters are compared against FANTOM5 samples to obtain relative expression.
Analyst:NA

link to data source
data