Coexpression cluster:C1874

Full id: C1874_left_Hepatocyte_liver_heart_Adipocyte_mature_small

Phase1 CAGE Peaks

Hg19::chr20:7238917..7238933,-	p1@ENST00000428954
Hg19::chr3:48936246..48936268,-	p2@SLC25A20
Hg19::chr3:48936272..48936353,-	p1@SLC25A20
Hg19::chr4:159593418..159593517,+	p1@ETFDH
Hg19::chr5:41213584..41213598,-	p2@C6

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

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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

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GO ID	GO name	FDR corrected p-value
GO:0009054	electron acceptor activity	0.00558580461822105
GO:0005743	mitochondrial inner membrane	0.00558580461822105
GO:0004174	electron-transferring-flavoprotein dehydrogenase activity	0.00558580461822105
GO:0016649	oxidoreductase activity, acting on the CH-NH group of donors, quinone or similar compound as acceptor	0.00558580461822105
GO:0019866	organelle inner membrane	0.00558580461822105
GO:0031966	mitochondrial membrane	0.00678749457995214
GO:0005740	mitochondrial envelope	0.00678749457995214
GO:0005579	membrane attack complex	0.00764833106111847
GO:0044429	mitochondrial part	0.00898406663165033
GO:0031967	organelle envelope	0.00898406663165033
GO:0031975	envelope	0.00898406663165033
GO:0019835	cytolysis	0.011651512098125
GO:0006958	complement activation, classical pathway	0.017470065340674
GO:0005739	mitochondrion	0.017470065340674
GO:0002455	humoral immune response mediated by circulating immunoglobulin	0.017470065340674
GO:0006956	complement activation	0.0194054685455721
GO:0002541	activation of plasma proteins during acute inflammatory response	0.0194054685455721
GO:0051539	4 iron, 4 sulfur cluster binding	0.0194054685455721
GO:0016064	immunoglobulin mediated immune response	0.0216155960363867
GO:0019724	B cell mediated immunity	0.0216155960363867
GO:0016645	oxidoreductase activity, acting on the CH-NH group of donors	0.0216155960363867
GO:0031090	organelle membrane	0.0223513859044162
GO:0002253	activation of immune response	0.0223513859044162
GO:0002449	lymphocyte mediated immunity	0.0223513859044162
GO:0006959	humoral immune response	0.0223513859044162
GO:0002460	adaptive immune response based on somatic recombination of immune receptors built from immunoglobulin superfamily domains	0.0223513859044162
GO:0002250	adaptive immune response	0.0223513859044162
GO:0002443	leukocyte mediated immunity	0.0223513859044162
GO:0002526	acute inflammatory response	0.0223513859044162
GO:0050778	positive regulation of immune response	0.0223513859044162
GO:0002684	positive regulation of immune system process	0.0223513859044162
GO:0016021	integral to membrane	0.0223513859044162
GO:0031224	intrinsic to membrane	0.0223513859044162
GO:0051536	iron-sulfur cluster binding	0.0223513859044162
GO:0051540	metal cluster binding	0.0223513859044162
GO:0005319	lipid transporter activity	0.0223513859044162
GO:0046930	pore complex	0.0223513859044162
GO:0050776	regulation of immune response	0.0223513859044162
GO:0002682	regulation of immune system process	0.0223513859044162
GO:0051240	positive regulation of multicellular organismal process	0.0228788602740446
GO:0002252	immune effector process	0.0233802913039492
GO:0045087	innate immune response	0.0236507793913901
GO:0044425	membrane part	0.0270730510644044
GO:0009055	electron carrier activity	0.0498973553192995

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>

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Cell Type

Ontology term	p-value	n
fat cell	1.58e-08	15

Uber Anatomy

Ontology term	p-value	n
adult organism	6.61e-22	114
primary circulatory organ	2.00e-07	27

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

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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

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(#promoters = Number of promoters in this coexpression cluster that have ChIP signal of the TF)

TF	#promoters	Enrichment	p-value	q-value
CTBP2#1488	2	25.0868001357313	0.00246143859967838	0.013850764327145
GTF2B#2959	2	12.7775319737297	0.0091993608955972	0.0347904132595334
THAP1#55145	2	12.5476578411405	0.00952843466738653	0.0358906548933235
ZNF143#7702	3	8.10052593133674	0.00362487051209098	0.0183348436367818

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

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This analysis result is provided for C0 - C305 clusters.