MCL coexpression mm9:398

Phase1 CAGE Peaks

	Short description
Mm9::chr11:120328644..120328685,-	p2@Arl16
Mm9::chr15:102341112..102341136,-	p5@Map3k12
Mm9::chr15:99288189..99288208,-	p2@Nckap5l
Mm9::chr17:36116182..36116253,-	p1@Prr3
Mm9::chr4:117556033..117556112,-	p1@B4galt2
Mm9::chr5:114893964..114893987,-	p3@Mmab
Mm9::chr7:134592623..134592680,-	p1@Zfp689
Mm9::chr7:150239284..150239364,-	p1@ENSMUST00000133630
Mm9::chr7:19661591..19661622,+	p2@Dmwd
Mm9::chr7:25372631..25372684,-	p1@Zfp575
Mm9::chr7:28043859..28043878,+	p2@Numbl
Mm9::chr7:5003102..5003113,+	p4@Zfp580
Mm9::chr7:5003117..5003159,+	p1@Zfp580
Mm9::chr7:5003165..5003203,+	p2@Zfp580
Mm9::chr7:5003205..5003234,+	p3@Zfp580
Mm9::chr7:69565028..69565043,-	p1@Mkrn3
Mm9::chr8:13869673..13869740,+	p1@Zfp828
Mm9::chr8:81923412..81923431,-	p2@Smad1
Mm9::chrX:148803223..148803283,-	p1@Gpr173

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:0009235	cobalamin metabolic process	0.0363227962526708
GO:0008817	cob(I)yrinic acid a,c-diamide adenosyltransferase activity	0.0363227962526708
GO:0016572	histone phosphorylation	0.0363227962526708
GO:0009236	cobalamin biosynthetic process	0.0363227962526708

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

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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>cell_data<br>uberon_data<br><br>

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Cell Type

Ontology term	p-value	n
ectodermal cell	1.43e-16	44
neurectodermal cell	1.43e-16	44
neural cell	2.24e-16	43
neuron	2.79e-15	33
neuronal stem cell	2.79e-15	33
neuroblast	2.79e-15	33
electrically signaling cell	2.79e-15	33
non-terminally differentiated cell	1.88e-14	49
electrically responsive cell	5.09e-13	39
electrically active cell	5.09e-13	39
CNS neuron (sensu Vertebrata)	1.72e-12	23
neuroblast (sensu Vertebrata)	1.72e-12	23

Uber Anatomy

Ontology term	p-value	n
central nervous system	1.90e-31	73
nervous system	1.87e-30	75
ectoderm-derived structure	7.48e-28	95
ectoderm	7.48e-28	95
presumptive ectoderm	7.48e-28	95
neurectoderm	2.65e-26	64
neural plate	2.65e-26	64
presumptive neural plate	2.65e-26	64
ecto-epithelium	1.20e-23	73
regional part of nervous system	4.38e-23	54
neural tube	7.13e-23	52
neural rod	7.13e-23	52
future spinal cord	7.13e-23	52
neural keel	7.13e-23	52
structure with developmental contribution from neural crest	1.30e-20	92
pre-chordal neural plate	4.00e-20	49
brain	9.99e-20	47
future brain	9.99e-20	47
regional part of brain	3.66e-19	46
anterior neural tube	6.18e-18	40
regional part of forebrain	9.70e-18	39
forebrain	9.70e-18	39
future forebrain	9.70e-18	39
gray matter	3.28e-17	34
brain grey matter	7.83e-14	29
regional part of telencephalon	7.83e-14	29
telencephalon	7.83e-14	29
cerebral cortex	1.56e-10	21
cerebral hemisphere	1.56e-10	21
pallium	1.56e-10	21
regional part of cerebral cortex	2.46e-08	17
multi-cellular organism	3.20e-07	333

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

JASPAR motifs

Motifs	-log10(p-value)
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