MCL coexpression mm9:686

Phase1 CAGE Peaks

	Short description
Mm9::chr10:19438492..19438529,-	p1@uc007enj.1
Mm9::chr11:88486943..88486975,-	p@chr11:88486943..88486975 -
Mm9::chr15:81853206..81853231,+	p7@Xrcc6
Mm9::chr15:81853256..81853270,+	p9@Xrcc6
Mm9::chr15:81853287..81853302,+	p10@Xrcc6
Mm9::chr15:81853353..81853364,+	p13@Xrcc6
Mm9::chr15:86065302..86065315,+	p@chr15:86065302..86065315 +
Mm9::chr5:114282539..114282554,-	p@chr5:114282539..114282554 -
Mm9::chr9:103328951..103328961,+	p@chr9:103328951..103328961 +
Mm9::chr9:103328967..103328977,+	p@chr9:103328967..103328977 +

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

---

GO ID	GO name	FDR corrected p-value
GO:0005958	DNA-dependent protein kinase complex	0.00230099161781625
GO:0006303	double-strand break repair via nonhomologous end joining	0.00402673533117844
GO:0000726	non-recombinational repair	0.00402673533117844
GO:0005941	unlocalized protein complex	0.00402673533117844
GO:0004003	ATP-dependent DNA helicase activity	0.0046019832356325
GO:0003678	DNA helicase activity	0.00657426176518928
GO:0006302	double-strand break repair	0.00657426176518928
GO:0008094	DNA-dependent ATPase activity	0.009203966471265
GO:0006310	DNA recombination	0.01840793294253
GO:0008026	ATP-dependent helicase activity	0.01840793294253
GO:0004386	helicase activity	0.0263568130768043
GO:0006281	DNA repair	0.0358571193776366
GO:0042623	ATPase activity, coupled	0.0375349257656276
GO:0006974	response to DNA damage stimulus	0.0375349257656276
GO:0009719	response to endogenous stimulus	0.0375349257656276
GO:0016887	ATPase activity	0.0375349257656276

Relative expression of the co-expression cluster over median <br>Analyst:

---

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><br>uberon_data<br><br>

---

Uber Anatomy

Ontology term	p-value	n
hemopoietic organ	1.01e-22	29
immune organ	1.01e-22	29
thymus	2.77e-18	23
neck	2.77e-18	23
respiratory system epithelium	2.77e-18	23
hemolymphoid system gland	2.77e-18	23
pharyngeal epithelium	2.77e-18	23
thymic region	2.77e-18	23
pharyngeal gland	2.77e-18	23
entire pharyngeal arch endoderm	2.77e-18	23
thymus primordium	2.77e-18	23
early pharyngeal endoderm	2.77e-18	23
mixed endoderm/mesoderm-derived structure	4.83e-18	35
pharynx	2.25e-17	24
gland of gut	2.25e-17	24
upper respiratory tract	2.25e-17	24
chordate pharynx	2.25e-17	24
pharyngeal arch system	2.25e-17	24
pharyngeal region of foregut	2.25e-17	24
segment of respiratory tract	4.71e-15	27
hematopoietic system	1.35e-14	45
blood island	1.35e-14	45
hemolymphoid system	2.17e-13	48
immune system	2.17e-13	48
organ segment	7.99e-11	35
craniocervical region	1.98e-10	36
lateral plate mesoderm	8.70e-10	87
gut epithelium	9.39e-09	55
respiratory tract	9.49e-09	41
endocrine gland	1.09e-08	60
respiratory system	1.84e-08	42
anterior region of body	3.45e-08	43
foregut	5.21e-08	80
gland	1.07e-07	65

TFBS overrepresentation<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}}}