MCL coexpression mm9:282

Phase1 CAGE Peaks

	Short description
Mm9::chr10:79605103..79605149,+	p1@Atp5d
Mm9::chr10:93661772..93661788,+	p1@Ndufa12
Mm9::chr11:4604306..4604333,-	p1@Gm6293 p1@Uqcr10
Mm9::chr11:4604337..4604354,-	p2@Gm6293 p2@Uqcr10
Mm9::chr12:103213893..103213956,-	p@chr12:103213893..103213956 -
Mm9::chr12:113205165..113205228,-	p1@2010107E04Rik
Mm9::chr15:35867911..35867933,-	p1@Cox6c p1@Gm6265
Mm9::chr15:82184655..82184691,-	p1@Ndufa6
Mm9::chr16:31948518..31948628,-	p1@0610012G03Rik
Mm9::chr16:91931799..91931863,-	p1@Atp5o p1@LOC100047429
Mm9::chr17:56857182..56857242,+	p1@Gm4943 p1@Ndufa11
Mm9::chr2:73749342..73749365,-	p1@Atp5g3
Mm9::chr4:115747627..115747654,-	p1@Uqcrh
Mm9::chr4:138686900..138686936,-	p1@Minos1
Mm9::chr5:108863378..108863389,-	p2@Atp5k
Mm9::chr5:108863392..108863428,-	p1@Atp5k
Mm9::chr5:145952403..145952417,-	p1@Atp5j2
Mm9::chr5:145952418..145952434,-	p2@Atp5j2
Mm9::chr5:145952435..145952441,-	p3@Atp5j2
Mm9::chr6:38484833..38484872,+	p1@1110001J03Rik
Mm9::chr6:39542568..39542587,+	p2@Ndufb2
Mm9::chr6:39542589..39542616,+	p1@Ndufb2
Mm9::chr7:104548559..104548625,+	p1@LOC635087 p1@LOC675851 p1@Ndufc2
Mm9::chr7:31411098..31411141,-	p1@Cox6b1
Mm9::chr7:31411146..31411158,-	p2@Cox6b1
Mm9::chr8:123192165..123192168,+	p3@Cox4i1
Mm9::chr8:123192181..123192199,+	p1@Cox4i1
Mm9::chr9:57369041..57369121,+	p1@Cox5a
Mm9::chr9:79607484..79607552,-	p1@Cox7a2
Mm9::chrX:103211038..103211098,+	p1@Cox7b

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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GO ID	GO name	FDR corrected p-value

GO ID	GO name	FDR corrected p-value
GO:0015078	hydrogen ion transmembrane transporter activity	1.06e-22
GO:0015077	monovalent inorganic cation transmembrane transporter activity	1.06e-22
GO:0022890	inorganic cation transmembrane transporter activity	3.55e-21
GO:0005739	mitochondrion	9.87e-19
GO:0006091	generation of precursor metabolites and energy	2.43e-15
GO:0008324	cation transmembrane transporter activity	7.50e-15
GO:0015075	ion transmembrane transporter activity	1.88e-13
GO:0004129	cytochrome-c oxidase activity	1.88e-13
GO:0016676	oxidoreductase activity, acting on heme group of donors, oxygen as acceptor	1.88e-13
GO:0015002	heme-copper terminal oxidase activity	1.88e-13

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

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FF samples	Score

FF samples	Score
heart, neonate N20 CNhs11127	0.67
heart, neonate N30 CNhs11202	0.65
heart, neonate N10 CNhs11118	0.61
heart, neonate N25 CNhs11196	0.61
GP2+ M cell, pool1 CNhs13228	0.56
heart, neonate N16 CNhs11209	0.56
GP2+ M cell, pool2 CNhs13231	0.52
heart, embryo E18 CNhs11030	0.50
heart, neonate N00 CNhs11213	0.48
heart, neonate N03 CNhs11221	0.48

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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>

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Uber Anatomy

Ontology term	p-value	n

Ontology term	p-value	n
primary circulatory organ	3.84e-09	18
heart	3.84e-09	18
primitive heart tube	3.84e-09	18
primary heart field	3.84e-09	18
anterior lateral plate mesoderm	3.84e-09	18
heart tube	3.84e-09	18
heart primordium	3.84e-09	18
cardiac mesoderm	3.84e-09	18
cardiogenic plate	3.84e-09	18
heart rudiment	3.84e-09	18

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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

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Novel motifs

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Motifs	-log10(p-value)

Motifs	-log10(p-value)
motif106_KCGCANTC	2.88
motif46_CGNAGT	2.62
motif37_GCTCGCA	2.25
motif65_TNGCGA	2.14
motif150_AGCACAGGCG	1.95
motif85_TWNNGCSNA	1.89
motif52_CGNATG	1.62
motif26_CTCCGCAGTA	1.53
motif107_CGTCTGCGTA	1.51
motif110_AGTCGCAGCG	1.50

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JASPAR motifs

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Motifs	-log10(p-value)

Motifs	-log10(p-value)
MA0028.1	5.14
MA0088.1	4.46
MA0076.1	4.24
MA0062.2	3.25
MA0141.1	3.07
MA0014.1	2.88
MA0137.2	2.46
MA0027.1	1.95
MA0006.1	1.56
MA0018.2	1.47

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