Coexpression cluster:C3780

Full id: C3780_submaxillary_salivary_small_parotid_duodenum_colon_gall

Phase1 CAGE Peaks

Hg19::chr19:3708338..3708374,+	p2@TJP3
Hg19::chr19:3708376..3708393,+	p3@TJP3
Hg19::chr19:49199209..49199284,+	p1@FUT2

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:0008107	galactoside 2-alpha-L-fucosyltransferase activity	0.00835945660815558
GO:0031127	alpha(1,2)-fucosyltransferase activity	0.00835945660815558
GO:0019317	fucose catabolic process	0.00919445483353814
GO:0042355	L-fucose catabolic process	0.00919445483353814
GO:0042354	L-fucose metabolic process	0.00919445483353814
GO:0006004	fucose metabolic process	0.010447628911207
GO:0008417	fucosyltransferase activity	0.0107456579977852
GO:0030173	integral to Golgi membrane	0.031843689414368
GO:0031228	intrinsic to Golgi membrane	0.032477416739505
GO:0005923	tight junction	0.0347950932244708
GO:0043296	apical junction complex	0.0347950932244708
GO:0016327	apicolateral plasma membrane	0.0347950932244708
GO:0031301	integral to organelle membrane	0.0347950932244708
GO:0031300	intrinsic to organelle membrane	0.0347950932244708
GO:0019320	hexose catabolic process	0.0347950932244708
GO:0046365	monosaccharide catabolic process	0.0347950932244708
GO:0046164	alcohol catabolic process	0.0347950932244708
GO:0005911	intercellular junction	0.0347950932244708
GO:0006486	protein amino acid glycosylation	0.0347950932244708
GO:0043413	biopolymer glycosylation	0.0347950932244708
GO:0009101	glycoprotein biosynthetic process	0.0347950932244708
GO:0044275	cellular carbohydrate catabolic process	0.0347950932244708
GO:0016052	carbohydrate catabolic process	0.0347950932244708
GO:0009100	glycoprotein metabolic process	0.0361155414592229
GO:0019318	hexose metabolic process	0.0433227771314757
GO:0005996	monosaccharide metabolic process	0.0433227771314757
GO:0016758	transferase activity, transferring hexosyl groups	0.0433227771314757

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
endodermal cell	2.29e-15	58
epithelial cell	2.93e-10	253
endo-epithelial cell	4.18e-10	42
epithelial cell of alimentary canal	8.69e-07	20

Uber Anatomy

Ontology term	p-value	n
subdivision of digestive tract	7.24e-36	118
digestive system	3.69e-33	145
digestive tract	3.69e-33	145
primitive gut	3.69e-33	145
endoderm-derived structure	9.43e-32	160
endoderm	9.43e-32	160
presumptive endoderm	9.43e-32	160
foregut	3.77e-25	87
immaterial anatomical entity	1.70e-16	117
organ system subdivision	6.57e-16	223
respiratory system	5.69e-15	74
respiratory tract	1.74e-13	54
gastrointestinal system	1.17e-12	25
adult organism	1.53e-12	114
trunk region element	2.35e-12	101
anatomical space	4.96e-12	95
endo-epithelium	2.82e-11	82
multi-tissue structure	1.01e-10	342
respiratory primordium	1.11e-10	38
endoderm of foregut	1.11e-10	38
intestine	3.19e-10	17
subdivision of trunk	3.46e-10	112
segment of respiratory tract	1.49e-09	47
organ	1.19e-08	503
thoracic cavity element	1.52e-08	34
thoracic cavity	1.52e-08	34
gland	1.86e-08	59
organism subdivision	2.51e-08	264
anatomical cluster	3.15e-08	373
thoracic segment organ	3.69e-08	35
epithelium of foregut-midgut junction	3.75e-08	25
anatomical boundary	3.75e-08	25
hepatobiliary system	3.75e-08	25
foregut-midgut junction	3.75e-08	25
septum transversum	3.75e-08	25
gut epithelium	3.80e-08	54
thoracic segment of trunk	8.03e-08	52
primordium	1.50e-07	160
organ segment	2.35e-07	98

Disease

Ontology term	p-value	n
carcinoma	9.47e-26	106
cell type cancer	2.84e-15	143
adenocarcinoma	5.64e-11	25

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)
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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
BHLHE40#8553	2	29.9145423646516	0.00146748352710614	0.0093968431690643

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.