Coexpression cluster:C373

Full id: C373_epidermoid_Prostate_cord_squamous_testicular_pharyngeal_testis

Phase1 CAGE Peaks

Hg19::chr10:134260508..134260546,+	p@chr10:134260508..134260546 +
Hg19::chr11:69867159..69867175,-	p3@ENST00000528507
Hg19::chr14:94405820..94405831,-	p@chr14:94405820..94405831 -
Hg19::chr14:94405844..94405870,-	p@chr14:94405844..94405870 -
Hg19::chr14:94405954..94405968,-	p@chr14:94405954..94405968 -
Hg19::chr14:94405974..94405997,-	p@chr14:94405974..94405997 -
Hg19::chr14:94406004..94406024,-	p@chr14:94406004..94406024 -
Hg19::chr15:48442084..48442096,-	p9@MYEF2
Hg19::chr17:34838949..34838959,-	p@chr17:34838949..34838959 -
Hg19::chr17:39755734..39755747,-	p@chr17:39755734..39755747 -
Hg19::chr17:39755914..39755961,-	p@chr17:39755914..39755961 -
Hg19::chr20:43726566..43726571,+	p@chr20:43726566..43726571 +
Hg19::chr20:43726572..43726588,+	p@chr20:43726572..43726588 +
Hg19::chr20:43726947..43726954,-	p@chr20:43726947..43726954 -
Hg19::chr20:43727145..43727152,-	p@chr20:43727145..43727152 -
Hg19::chr20:43727168..43727209,-	p@chr20:43727168..43727209 -
Hg19::chr20:43727212..43727217,-	p@chr20:43727212..43727217 -
Hg19::chr20:57036925..57036961,-	p9@APCDD1L
Hg19::chr2:99438974..99439027,-	p5@C2orf55
Hg19::chr3:55205086..55205090,-	p@chr3:55205086..55205090 -
Hg19::chr5:1882170..1882182,-	p3@IRX4
Hg19::chr5:1882184..1882203,-	p4@IRX4
Hg19::chr5:40984132..40984133,+	p@chr5:40984132..40984133 +
Hg19::chr6:129597668..129597672,+	p@chr6:129597668..129597672 +
Hg19::chr7:106101158..106101197,-	p@chr7:106101158..106101197 -
Hg19::chr7:150871938..150871949,-	p3@GBX1
Hg19::chr7:54900686..54900691,-	p@chr7:54900686..54900691 -
Hg19::chrX:15683092..15683103,-	p4@TMEM27
Hg19::chrX:15683147..15683159,-	p3@TMEM27

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

---

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

---

GO ID	GO name	FDR corrected p-value
GO:0008241	peptidyl-dipeptidase activity	0.0314118382538923
GO:0004246	peptidyl-dipeptidase A activity	0.0314118382538923

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>

---

Cell Type

Ontology term	p-value	n
epithelial cell of cervix	1.55e-98	2

Uber Anatomy

Ontology term	p-value	n
uterine epithelium	1.55e-98	2
cervix epithelium	1.55e-98	2
uterine cervix	4.27e-34	6
neck of organ	4.27e-34	6
uterus	6.74e-11	21
embryonic uterus	1.80e-10	22
internal female genitalia	1.80e-10	22
internal genitalia	2.15e-09	25
female reproductive organ	8.21e-07	37
female reproductive system	8.21e-07	37

Disease

Ontology term	p-value	n
cervical cancer	1.48e-40	5
squamous cell carcinoma	1.43e-15	14
female reproductive organ cancer	8.32e-09	27
reproductive organ cancer	2.67e-08	29

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

---

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

TF	#promoters	Enrichment	p-value	q-value
CTCF#10664	14	2.58770997320863	0.000278132429679436	0.00296165098116748
CTCFL#140690	6	4.0854774535809	0.00291795808612357	0.015766393737734
ESR1#2099	6	6.3659179233423	0.00029309653809919	0.00310831735809721
MAX#4149	15	3.33752871155541	6.20854210030502e-06	0.000183374979755021
RAD21#5885	12	4.28484161191296	7.02264511834706e-06	0.000202775237355557
RXRA#6256	5	3.46114088605746	0.0133687500993669	0.0472397784418657
SMC3#9126	7	3.63153551429414	0.0024278138891458	0.0136770297625815
ZEB1#6935	6	3.49415834845735	0.00627460375203944	0.0276830576740135

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.