Coexpression cluster:C418

Full id: C418_normal_Melanocyte_Hep2_cervical_umbilical_osteosarcoma_gall

Phase1 CAGE Peaks

Hg19::chr16:84328230..84328235,+	p10@WFDC1
Hg19::chr16:84328254..84328265,+	p8@WFDC1
Hg19::chr16:84328292..84328340,+	p2@WFDC1
Hg19::chr16:84328345..84328375,+	p5@WFDC1
Hg19::chr16:84328382..84328416,+	p3@WFDC1
Hg19::chr16:84328429..84328455,+	p4@WFDC1
Hg19::chr16:84328459..84328512,+	p1@WFDC1
Hg19::chr16:84353062..84353074,+	p@chr16:84353062..84353074 +
Hg19::chr16:84353087..84353097,+	p@chr16:84353087..84353097 +
Hg19::chr16:84353122..84353133,+	p@chr16:84353122..84353133 +
Hg19::chr16:84363141..84363156,+	p@chr16:84363141..84363156 +
Hg19::chr16:86229885..86229905,+	p@chr16:86229885..86229905 +
Hg19::chr16:86229916..86229943,+	p@chr16:86229916..86229943 +
Hg19::chr16:86532148..86532166,-	p@chr16:86532148..86532166 -
Hg19::chr16:86546627..86546642,+	p@chr16:86546627..86546642 +
Hg19::chr1:192735472..192735488,-	p@chr1:192735472..192735488 -
Hg19::chr1:204839198..204839211,+	p@chr1:204839198..204839211 +
Hg19::chr1:204839218..204839235,+	p4@NFASC
Hg19::chr20:49253425..49253427,-	p14@FAM65C
Hg19::chr20:49253452..49253461,-	p12@FAM65C
Hg19::chr20:49269691..49269695,+	p1@ENST00000435177
Hg19::chr7:54879609..54879616,-	p@chr7:54879609..54879616 -
Hg19::chr7:54879626..54879647,-	p@chr7:54879626..54879647 -
Hg19::chr7:54879666..54879725,-	p@chr7:54879666..54879725 -
Hg19::chr8:53477984..53477997,-	p1@FAM150A

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:0030308	negative regulation of cell growth	0.039468234767104
GO:0045792	negative regulation of cell size	0.039468234767104
GO:0045926	negative regulation of growth	0.039468234767104
GO:0001558	regulation of cell growth	0.0498755484983084
GO:0004867	serine-type endopeptidase inhibitor activity	0.0498755484983084
GO:0016049	cell growth	0.0498755484983084
GO:0040008	regulation of growth	0.0498755484983084
GO:0008361	regulation of cell size	0.0498755484983084

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
enteric smooth muscle cell	3.82e-13	3
smooth muscle cell of large intestine	3.82e-13	3
smooth muscle cell of colon	3.82e-13	3
smooth muscle cell of prostate	4.85e-09	2

Uber Anatomy

Ontology term	p-value	n
larynx	4.16e-37	9
subdivision of digestive tract	1.12e-25	118
digestive system	1.66e-24	145
digestive tract	1.66e-24	145
primitive gut	1.66e-24	145
endoderm-derived structure	5.19e-23	160
endoderm	5.19e-23	160
presumptive endoderm	5.19e-23	160
upper respiratory tract	2.85e-20	19
intestine	6.96e-17	17
organ system subdivision	9.51e-14	223
cloaca	1.56e-13	14
anal region	1.56e-13	14
embryonic cloaca	1.56e-13	14
terminal part of digestive tract	1.56e-13	14
primitive urogenital sinus	1.56e-13	14
proctodeum	1.56e-13	14
respiratory primordium	3.32e-13	38
endoderm of foregut	3.32e-13	38
hindgut	1.40e-12	19
genitourinary system	1.46e-12	15
gastrointestinal system	3.59e-11	25
colon	4.49e-11	9
respiratory tract	5.07e-10	54
orifice	2.57e-09	36
organ segment	3.55e-09	98
multi-tissue structure	3.71e-09	342
prostate gland	4.15e-09	11
male accessory sex gland	4.15e-09	11
embryonic cloacal epithelium	4.15e-09	11
epithelium of hindgut	4.15e-09	11
urogenital sinus epithelium	4.15e-09	11
prostate bud	4.15e-09	11
prostate field	4.15e-09	11
respiratory system	5.09e-09	74
large intestine	5.28e-09	11
segment of respiratory tract	1.95e-08	47
sex gland	2.54e-08	12
male reproductive gland	2.54e-08	12
small intestine	5.99e-08	4
adult organism	7.53e-08	114
mixed endoderm/mesoderm-derived structure	9.79e-08	29
anatomical cluster	1.33e-07	373
foregut	3.60e-07	87
organ	3.65e-07	503
organ part	6.00e-07	218

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.