MCL coexpression mm9:883

Phase1 CAGE Peaks

	Short description
Mm9::chr11:102180696..102180760,-	p2@Ubtf
Mm9::chr11:94871166..94871204,+	p2@Samd14
Mm9::chr11:94871212..94871233,+	p4@Samd14
Mm9::chr11:94871250..94871261,+	p11@Samd14
Mm9::chr11:94871280..94871343,+	p1@Samd14
Mm9::chr11:94871558..94871590,+	p5@Samd14
Mm9::chr11:94871607..94871639,-	p@chr11:94871607..94871639 -
Mm9::chrX:90920427..90920500,+	p1@Pcyt1b

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:0004105	choline-phosphate cytidylyltransferase activity	0.0179691565596517
GO:0001541	ovarian follicle development	0.0409124068227524
GO:0022601	menstrual cycle phase	0.0409124068227524
GO:0022602	menstrual cycle process	0.0409124068227524
GO:0008585	female gonad development	0.0409124068227524
GO:0046545	development of primary female sexual characteristics	0.0409124068227524
GO:0046660	female sex differentiation	0.0409124068227524
GO:0042698	menstrual cycle	0.0409124068227524
GO:0008406	gonad development	0.0409124068227524
GO:0048608	reproductive structure development	0.0409124068227524
GO:0045137	development of primary sexual characteristics	0.0409124068227524
GO:0008654	phospholipid biosynthetic process	0.0409124068227524
GO:0048609	reproductive process in a multicellular organism	0.0409124068227524
GO:0032504	multicellular organism reproduction	0.0409124068227524
GO:0046467	membrane lipid biosynthetic process	0.0409124068227524
GO:0007548	sex differentiation	0.0409124068227524
GO:0003006	reproductive developmental process	0.0453468041274223

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
CNS neuron (sensu Vertebrata)	3.31e-13	23
neuroblast (sensu Vertebrata)	3.31e-13	23
neuron	2.58e-12	33
neuronal stem cell	2.58e-12	33
neuroblast	2.58e-12	33
electrically signaling cell	2.58e-12	33
electrically responsive cell	6.43e-10	39
electrically active cell	6.43e-10	39
neural cell	6.48e-10	43
ectodermal cell	9.11e-10	44
neurectodermal cell	9.11e-10	44
non-terminally differentiated cell	2.78e-08	49

Uber Anatomy

Ontology term	p-value	n
neurectoderm	1.80e-17	64
neural plate	1.80e-17	64
presumptive neural plate	1.80e-17	64
central nervous system	7.28e-17	73
nervous system	4.97e-16	75
regional part of nervous system	6.49e-15	54
ectoderm-derived structure	1.66e-14	95
ectoderm	1.66e-14	95
presumptive ectoderm	1.66e-14	95
neural tube	2.41e-14	52
neural rod	2.41e-14	52
future spinal cord	2.41e-14	52
neural keel	2.41e-14	52
ecto-epithelium	4.66e-14	73
pre-chordal neural plate	1.69e-13	49
brain	2.34e-11	47
future brain	2.34e-11	47
regional part of brain	2.52e-11	46
anterior neural tube	1.48e-10	40
regional part of forebrain	3.62e-10	39
forebrain	3.62e-10	39
future forebrain	3.62e-10	39
gray matter	7.61e-10	34
structure with developmental contribution from neural crest	7.81e-10	92
embryo	3.15e-08	320
multi-cellular organism	1.54e-07	333
brain grey matter	2.75e-07	29
regional part of telencephalon	2.75e-07	29
telencephalon	2.75e-07	29

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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