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Coexpression cluster:C2220

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Full id: C2220_CD14_mature_chorionic_adipose_breast_Cardiac_choriocarcinoma



Phase1 CAGE Peaks

Hg19::chr12:56236690..56236701,-p3@MMP19
Hg19::chr12:56236711..56236730,-p1@MMP19
Hg19::chr3:12329397..12329433,+p2@PPARG
Hg19::chr3:12329464..12329472,+p6@PPARG


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:0050872white fat cell differentiation0.00816322523237728
GO:0045600positive regulation of fat cell differentiation0.00816322523237728
GO:0045598regulation of fat cell differentiation0.00816322523237728
GO:0045444fat cell differentiation0.0107115521542341
GO:0030574collagen catabolic process0.0107115521542341
GO:0044256protein digestion0.0107115521542341
GO:0044254multicellular organismal protein catabolic process0.0107115521542341
GO:0044266multicellular organismal macromolecule catabolic process0.0107115521542341
GO:0044259multicellular organismal macromolecule metabolic process0.0107115521542341
GO:0044268multicellular organismal protein metabolic process0.0107115521542341
GO:0044243multicellular organismal catabolic process0.0107115521542341
GO:0032963collagen metabolic process0.0107115521542341
GO:0044236multicellular organismal metabolic process0.010828942645108
GO:0007584response to nutrient0.0173568980647782
GO:0045597positive regulation of cell differentiation0.0173568980647782
GO:0048869cellular developmental process0.0173568980647782
GO:0030154cell differentiation0.0173568980647782
GO:0031667response to nutrient levels0.0203912413506773
GO:0009991response to extracellular stimulus0.0207966150112808
GO:0051094positive regulation of developmental process0.0207966150112808
GO:0007586digestion0.0276595591154259
GO:0003707steroid hormone receptor activity0.0325059811389192
GO:0001525angiogenesis0.0337966043625247
GO:0045595regulation of cell differentiation0.0337966043625247
GO:0048514blood vessel morphogenesis0.0337966043625247
GO:0004879ligand-dependent nuclear receptor activity0.0337966043625247
GO:0048646anatomical structure formation0.0337966043625247
GO:0001568blood vessel development0.0337966043625247
GO:0032502developmental process0.0337966043625247
GO:0001944vasculature development0.0337966043625247
GO:0004222metalloendopeptidase activity0.0389928192059665
GO:0050793regulation of developmental process0.0449986503854178
GO:0008270zinc ion binding0.0472467787160881



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>


Uber Anatomy
Ontology termp-valuen
mesoderm4.50e-22448
mesoderm-derived structure4.50e-22448
presumptive mesoderm4.50e-22448
multi-cellular organism3.38e-19659
organ1.57e-17511
anatomical system3.12e-17625
anatomical group6.98e-17626
musculoskeletal system1.79e-13167
immune system1.80e-12115
embryonic structure2.45e-12605
developing anatomical structure2.45e-12605
germ layer4.71e-12604
embryonic tissue4.71e-12604
presumptive structure4.71e-12604
epiblast (generic)4.71e-12604
embryo1.16e-11612
bone marrow5.24e-1080
trunk mesenchyme6.38e-10143
trunk2.40e-09216
skeletal element3.00e-09101
skeletal system3.00e-09101
mesenchyme4.78e-09238
entire embryonic mesenchyme4.78e-09238
bone element1.11e-0886
somite8.22e-0883
paraxial mesoderm8.22e-0883
presomitic mesoderm8.22e-0883
presumptive segmental plate8.22e-0883
trunk paraxial mesoderm8.22e-0883
presumptive paraxial mesoderm8.22e-0883
multi-tissue structure1.36e-07347
lateral plate mesoderm3.65e-07216


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.