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Coexpression cluster:C667

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Full id: C667_CD14_tenocyte_Synoviocyte_Smooth_dura_Preadipocyte_Macrophage



Phase1 CAGE Peaks

Hg19::chr2:38295461..38295480,-p@chr2:38295461..38295480
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Hg19::chr2:38296784..38296796,-p@chr2:38296784..38296796
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Hg19::chr2:38297270..38297290,-p@chr2:38297270..38297290
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Hg19::chr2:38297628..38297658,-p@chr2:38297628..38297658
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Hg19::chr2:38297677..38297731,-p@chr2:38297677..38297731
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Hg19::chr2:38302488..38302516,-p5@CYP1B1
Hg19::chr2:38303286..38303301,-p1@CYP1B1
Hg19::chr9:90342509..90342530,+p3@CTSL1
Hg19::chr9:90342545..90342564,+p2@CTSL1
Hg19::chr9:90344555..90344567,+p@chr9:90344555..90344567
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Hg19::chr9:90344568..90344585,+p@chr9:90344568..90344585
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Hg19::chr9:90345291..90345317,+p@chr9:90345291..90345317
+
Hg19::chr9:90345922..90345945,+p@chr9:90345922..90345945
+


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

p.valueFDRnGenesnPathwayName
5.75225560838478e-050.03641177800107572217IL-4 up reg. targets (Netpath):NetPath_16



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:0004217cathepsin L activity0.00812421811231538
GO:0008210estrogen metabolic process0.0243690670105399
GO:0050381unspecific monooxygenase activity0.0351925090884915
GO:0016712oxidoreductase activity, acting on paired donors, with incorporation or reduction of molecular oxygen, reduced flavin or flavoprotein as one donor, and incorporation of one atom of oxygen0.0419380578740978
GO:0019825oxygen binding0.0419380578740978
GO:0010033response to organic substance0.0419380578740978
GO:0042445hormone metabolic process0.0496449157332622
GO:0004197cysteine-type endopeptidase activity0.0496449157332622
GO:0005792microsome0.0496449157332622
GO:0042598vesicular fraction0.0496449157332622
GO:0016705oxidoreductase activity, acting on paired donors, with incorporation or reduction of molecular oxygen0.0496449157332622
GO:0006725aromatic compound metabolic process0.0496449157332622
GO:0005764lysosome0.0496449157332622
GO:0000323lytic vacuole0.0496449157332622
GO:0007601visual perception0.0496449157332622
GO:0050953sensory perception of light stimulus0.0496449157332622
GO:0008202steroid metabolic process0.0496449157332622
GO:0005773vacuole0.0496449157332622
GO:0004497monooxygenase activity0.0496449157332622



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
skeletal system1.14e-17100
skeletal element4.95e-1790
bone marrow1.83e-1676
musculoskeletal system2.64e-16167
bone element2.93e-1682
connective tissue1.53e-15371
mesoderm6.86e-13315
mesoderm-derived structure6.86e-13315
presumptive mesoderm6.86e-13315
immune system9.38e-1393
hematopoietic system1.58e-1098
blood island1.58e-1098
hemolymphoid system1.01e-08108
organ9.97e-07503


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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