Coexpression cluster:C1585

Full id: C1585_nonsmall_hepatoma_mucinous_bile_lung_Adipocyte_mature

Phase1 CAGE Peaks

Hg19::chr10:5005598..5005621,+	p1@AKR1C1
Hg19::chr10:5060113..5060122,-	p4@AKR1C2
Hg19::chr10:5060148..5060171,-	p2@AKR1C2
Hg19::chr10:5060184..5060198,-	p3@AKR1C2
Hg19::chr10:5136595..5136628,+	p1@AKR1C3

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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p.value	FDR	nGenes	nPathway	Name
7.54806151097432e-09	1.59264097881558e-06	3	57	Steroid hormone biosynthesis (KEGG):00140
1.47440005351926e-08	2.33323808469424e-06	3	71	Metabolism of xenobiotics by cytochrome P450 (KEGG):00980
2.16690761080603e-11	1.37165251764022e-08	3	9	Benzo(a)pyrene metabolism (Wikipathways):WP696
2.26486989237789e-07	2.8673252837504e-05	3	175	metapathway biotransformation (Wikipathways):WP702
1.73517139063789e-05	0.00183060581712297	3	740	TGF beta receptor down reg. targets (Netpath):NetPath_7
3.43093705044287e-10	1.08589157646517e-07	3	21	{POU2F1,21} (Static Module):NA

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:0047115	trans-1,2-dihydrobenzene-1,2-diol dehydrogenase activity	1.05602779107617e-11
GO:0016628	oxidoreductase activity, acting on the CH-CH group of donors, NAD or NADP as acceptor	2.95687781501328e-09
GO:0016229	steroid dehydrogenase activity	1.74596594791261e-08
GO:0032052	bile acid binding	7.17465281257153e-08
GO:0047026	3-alpha-hydroxysteroid dehydrogenase (A-specific) activity	7.17465281257153e-08
GO:0016627	oxidoreductase activity, acting on the CH-CH group of donors	1.6171481578645e-07
GO:0016616	oxidoreductase activity, acting on the CH-OH group of donors, NAD or NADP as acceptor	9.00496018006475e-07
GO:0016614	oxidoreductase activity, acting on CH-OH group of donors	9.70397137567286e-07
GO:0004033	aldo-keto reductase activity	2.63018975102282e-06
GO:0031406	carboxylic acid binding	3.26369824148814e-06
GO:0032787	monocarboxylic acid metabolic process	3.74303770407995e-06
GO:0006693	prostaglandin metabolic process	3.75179054980983e-06
GO:0006692	prostanoid metabolic process	3.75179054980983e-06
GO:0006690	icosanoid metabolic process	3.13595372768503e-05
GO:0044255	cellular lipid metabolic process	5.24142597046853e-05
GO:0019752	carboxylic acid metabolic process	5.24142597046853e-05
GO:0006082	organic acid metabolic process	5.24142597046853e-05
GO:0006629	lipid metabolic process	8.25175891835759e-05
GO:0007586	digestion	8.41483072985558e-05
GO:0047006	20-alpha-hydroxysteroid dehydrogenase activity	0.0002877314018207
GO:0047017	prostaglandin-F synthase activity	0.0002877314018207
GO:0006631	fatty acid metabolic process	0.0002877314018207
GO:0016491	oxidoreductase activity	0.0002877314018207
GO:0008202	steroid metabolic process	0.000368383180518114
GO:0047042	3-alpha-hydroxysteroid dehydrogenase (B-specific) activity	0.00048744591208611
GO:0047045	testosterone 17-beta-dehydrogenase (NADP+) activity	0.000703026292878017
GO:0050327	testosterone 17-beta-dehydrogenase activity	0.000902624470962375
GO:0015721	bile acid and bile salt transport	0.00108795282557785
GO:0030299	cholesterol absorption	0.00162453274055371
GO:0044241	lipid digestion	0.00162453274055371
GO:0050892	intestinal absorption	0.00196504487007652
GO:0015718	monocarboxylic acid transport	0.00257815269091689
GO:0008206	bile acid metabolic process	0.00257815269091689
GO:0042632	cholesterol homeostasis	0.00257815269091689
GO:0055092	sterol homeostasis	0.00257815269091689
GO:0006118	electron transport	0.00257815269091689
GO:0055088	lipid homeostasis	0.00279828446182722
GO:0022600	digestive system process	0.0030450126061026
GO:0006091	generation of precursor metabolites and energy	0.00396795665993615
GO:0006805	xenobiotic metabolic process	0.00471810220199635
GO:0009410	response to xenobiotic stimulus	0.00504803476275117
GO:0051260	protein homooligomerization	0.00594117466120264
GO:0051259	protein oligomerization	0.00876985438476458
GO:0046942	carboxylic acid transport	0.0133665226178137
GO:0015849	organic acid transport	0.0133665226178137
GO:0005737	cytoplasm	0.0160193622354137
GO:0048878	chemical homeostasis	0.038806504830292
GO:0006461	protein complex assembly	0.0427312690939316
GO:0032501	multicellular organismal process	0.0494503357430177

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>disease_data<br>

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Cell Type

Ontology term	p-value	n
fat cell	1.05e-10	15
fibroblast of choroid plexus	4.98e-08	2

Uber Anatomy

Ontology term	p-value	n
respiratory primordium	2.10e-09	38
endoderm of foregut	2.10e-09	38
thoracic cavity element	5.89e-09	34
thoracic cavity	5.89e-09	34
thoracic segment organ	1.21e-08	35
vascular plexus	4.98e-08	2
ventricle of nervous system	4.98e-08	2
choroid plexus	4.98e-08	2
brain ventricle	4.98e-08	2
ventricular system of brain	4.98e-08	2
ventricular system of central nervous system	4.98e-08	2
thoracic segment of trunk	1.26e-07	52
respiratory system	1.32e-07	74
lung	2.02e-07	22
respiratory tube	2.02e-07	22
respiration organ	2.02e-07	22
pair of lungs	2.02e-07	22
lung primordium	2.02e-07	22
lung bud	2.02e-07	22
subdivision of trunk	3.07e-07	112
respiratory tract	3.89e-07	54
foregut	4.84e-07	87

Disease

Ontology term	p-value	n
respiratory system cancer	3.30e-08	16
carcinoma	3.99e-07	106

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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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

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This analysis result is provided for C0 - C305 clusters.