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Coexpression cluster:C1365

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Full id: C1365_Fibroblast_Adipocyte_Preadipocyte_Smooth_Chondrocyte_Mesenchymal_Pericytes



Phase1 CAGE Peaks

  Short description
Hg19::chr12:57554837..57554851,+ p@chr12:57554837..57554851
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Hg19::chr12:57556203..57556225,+ p@chr12:57556203..57556225
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Hg19::chr12:57572239..57572259,+ p@chr12:57572239..57572259
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Hg19::chr12:57572685..57572712,+ p@chr12:57572685..57572712
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Hg19::chr12:57605894..57605910,+ p@chr12:57605894..57605910
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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


No GOStat results

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


Cell Type
Ontology termp-valuen
non-terminally differentiated cell2.04e-20180
fibroblast1.43e-1575
multi fate stem cell3.81e-09430
somatic stem cell4.12e-08436
stem cell4.59e-08444
fat cell1.89e-0715
skin fibroblast9.26e-0723
Uber Anatomy
Ontology termp-valuen
multi-cellular organism7.52e-18659
anatomical system1.72e-11625
organ3.14e-11511
anatomical group3.21e-11626
musculoskeletal system7.63e-11167
embryo2.48e-10612
embryonic structure3.59e-09605
developing anatomical structure3.59e-09605
germ layer5.72e-09604
embryonic tissue5.72e-09604
presumptive structure5.72e-09604
epiblast (generic)5.72e-09604
somite1.40e-0783
paraxial mesoderm1.40e-0783
presomitic mesoderm1.40e-0783
presumptive segmental plate1.40e-0783
trunk paraxial mesoderm1.40e-0783
presumptive paraxial mesoderm1.40e-0783


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


This analysis result is provided for C0 - C305 clusters.