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Coexpression cluster:C1113

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Full id: C1113_heart_skeletal_smooth_bladder_penis_tongue_diaphragm



Phase1 CAGE Peaks

Hg19::chr10:29923874..29923879,-p12@SVIL
Hg19::chr22:36291022..36291026,-p@chr22:36291022..36291026
-
Hg19::chr6:76203489..76203522,-p1@FILIP1
Hg19::chrX:33229600..33229611,-p7@DMD
Hg19::chrX:33229614..33229635,-p3@DMD
Hg19::chrX:33229636..33229651,-p4@DMD
Hg19::chrX:33229657..33229675,-p2@DMD


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:0043034costamere9.77416470118443e-07
GO:0030016myofibril8.2102983489949e-05
GO:0044449contractile fiber part8.2102983489949e-05
GO:0043292contractile fiber8.2102983489949e-05
GO:0007517muscle development0.00047912955365206
GO:0003779actin binding0.00259838023443736
GO:0043043peptide biosynthetic process0.00369591711616474
GO:0008092cytoskeletal protein binding0.00369591711616474
GO:0048513organ development0.00848267173866793
GO:0051693actin filament capping0.00848267173866793
GO:0051016barbed-end actin filament capping0.00848267173866793
GO:0030835negative regulation of actin filament depolymerization0.00848267173866793
GO:0016010dystrophin-associated glycoprotein complex0.00848267173866793
GO:0030834regulation of actin filament depolymerization0.00848267173866793
GO:0030042actin filament depolymerization0.00848267173866793
GO:0006518peptide metabolic process0.00961264662949734
GO:0005856cytoskeleton0.00961264662949734
GO:0005509calcium ion binding0.00961264662949734
GO:0048731system development0.00962668341602653
GO:0051015actin filament binding0.00962668341602653
GO:0005605basal lamina0.00962668341602653
GO:0008307structural constituent of muscle0.00962668341602653
GO:0008064regulation of actin polymerization and/or depolymerization0.00962668341602653
GO:0051261protein depolymerization0.00962668341602653
GO:0030832regulation of actin filament length0.00962668341602653
GO:0032535regulation of cellular component size0.00962668341602653
GO:0032956regulation of actin cytoskeleton organization and biogenesis0.00962668341602653
GO:0051129negative regulation of cellular component organization and biogenesis0.0102696566719827
GO:0051493regulation of cytoskeleton organization and biogenesis0.0103217134077448
GO:0033043regulation of organelle organization and biogenesis0.0103217134077448
GO:0048856anatomical structure development0.010539812693488
GO:0008154actin polymerization and/or depolymerization0.010539812693488
GO:0007519skeletal muscle development0.0112247198530957
GO:0005604basement membrane0.0120315799077811
GO:0007275multicellular organismal development0.0122947402574183
GO:0005200structural constituent of cytoskeleton0.0130501615289126
GO:0014706striated muscle development0.0131450187455632
GO:0051128regulation of cellular component organization and biogenesis0.0145418564873345
GO:0051248negative regulation of protein metabolic process0.0147348790925255
GO:0043232intracellular non-membrane-bound organelle0.0169329059648885
GO:0043228non-membrane-bound organelle0.0169329059648885
GO:0044420extracellular matrix part0.0172276867122797
GO:0003012muscle system process0.0202706437938474
GO:0006936muscle contraction0.0202706437938474
GO:0032502developmental process0.0202706437938474
GO:0005886plasma membrane0.0253086085924412
GO:0032501multicellular organismal process0.0253086085924412
GO:0030036actin cytoskeleton organization and biogenesis0.0283737756670157
GO:0030029actin filament-based process0.0292519804867804
GO:0015629actin cytoskeleton0.0326188506973571
GO:0044444cytoplasmic part0.0336695570485764
GO:0005578proteinaceous extracellular matrix0.0437898899623931
GO:0051246regulation of protein metabolic process0.0437898899623931
GO:0009892negative regulation of metabolic process0.0443956015287848



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><br>

Cell Type
Ontology termp-valuen
muscle precursor cell1.75e-0957
myoblast1.75e-0957
multi-potent skeletal muscle stem cell1.75e-0957
muscle cell2.78e-0854
contractile cell5.33e-0859
Uber Anatomy
Ontology termp-valuen
adult organism2.56e-41115
multi-tissue structure4.44e-18347
regional part of brain1.24e-1759
neural tube6.28e-1757
neural rod6.28e-1757
future spinal cord6.28e-1757
neural keel6.28e-1757
anatomical cluster3.27e-16286
anatomical conduit9.49e-16241
neural plate8.51e-1586
presumptive neural plate8.51e-1586
cell layer5.30e-14312
brain5.91e-1469
future brain5.91e-1469
epithelium6.54e-14309
multi-cellular organism1.12e-13659
organism subdivision1.80e-13365
neurectoderm2.68e-1390
central nervous system3.19e-1382
tube9.69e-13194
anterior neural tube1.09e-1242
muscle tissue1.34e-1263
musculature1.34e-1263
musculature of body1.34e-1263
regional part of forebrain3.39e-1241
forebrain3.39e-1241
future forebrain3.39e-1241
regional part of nervous system1.28e-1194
nervous system1.28e-1194
skeletal muscle tissue1.42e-1161
striated muscle tissue1.42e-1161
myotome1.42e-1161
anterior region of body3.35e-10129
craniocervical region3.35e-10129
head5.17e-10123
ectoderm-derived structure6.82e-10169
gray matter7.29e-1034
brain grey matter7.29e-1034
anatomical system7.38e-10625
telencephalon9.62e-1034
anatomical group1.17e-09626
embryo1.28e-09612
regional part of telencephalon1.63e-0933
embryonic structure2.14e-09605
developing anatomical structure2.14e-09605
ectoderm3.83e-09173
presumptive ectoderm3.83e-09173
germ layer4.32e-09604
embryonic tissue4.32e-09604
presumptive structure4.32e-09604
epiblast (generic)4.32e-09604
cerebral hemisphere7.24e-0932
primary circulatory organ1.09e-0827
dermomyotome2.35e-0870
pre-chordal neural plate3.17e-0861
somite2.07e-0783
paraxial mesoderm2.07e-0783
presomitic mesoderm2.07e-0783
presumptive segmental plate2.07e-0783
trunk paraxial mesoderm2.07e-0783
presumptive paraxial mesoderm2.07e-0783
splanchnic layer of lateral plate mesoderm5.08e-0784
heart5.36e-0724
primitive heart tube5.36e-0724
primary heart field5.36e-0724
anterior lateral plate mesoderm5.36e-0724
heart tube5.36e-0724
heart primordium5.36e-0724
cardiac mesoderm5.36e-0724
cardiogenic plate5.36e-0724
heart rudiment5.36e-0724
circulatory system7.29e-07113


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

No analysis results for this cluster

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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