MCL coexpression mm9:1480

Phase1 CAGE Peaks

	Short description
Mm9::chr7:80520366..80520378,+	p5@Rgma
Mm9::chr7:80520380..80520435,+	p2@Rgma
Mm9::chr7:80520452..80520464,+	p3@Rgma
Mm9::chr7:80520471..80520483,+	p6@Rgma
Mm9::chr7:80520608..80520630,-	p1@ENSMUST00000167076
Mm9::chr7:80520700..80520719,+	p4@Rgma

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:0001843	neural tube closure	0.0164972881170219
GO:0014020	primary neural tube formation	0.0164972881170219
GO:0001841	neural tube formation	0.0164972881170219
GO:0001839	neural plate morphogenesis	0.0164972881170219
GO:0001838	embryonic epithelial tube formation	0.0164972881170219
GO:0001840	neural plate development	0.0164972881170219
GO:0021915	neural tube development	0.0164972881170219
GO:0016331	morphogenesis of embryonic epithelium	0.0164972881170219
GO:0048503	GPI anchor binding	0.0213144486702979
GO:0002009	morphogenesis of an epithelium	0.0213144486702979
GO:0035239	tube morphogenesis	0.0213144486702979
GO:0035091	phosphoinositide binding	0.0213144486702979
GO:0009986	cell surface	0.0213144486702979
GO:0005543	phospholipid binding	0.0213144486702979
GO:0048598	embryonic morphogenesis	0.0213144486702979
GO:0035295	tube development	0.0213144486702979
GO:0016337	cell-cell adhesion	0.0213144486702979
GO:0043009	chordate embryonic development	0.0213144486702979
GO:0009792	embryonic development ending in birth or egg hatching	0.0213144486702979
GO:0008289	lipid binding	0.0321810113406015
GO:0009790	embryonic development	0.0384829108326616
GO:0022610	biological adhesion	0.0462199185839612
GO:0007155	cell adhesion	0.0462199185839612
GO:0007399	nervous system development	0.0465539911247466

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)	4.09e-13	23
neuroblast (sensu Vertebrata)	4.09e-13	23
non-terminally differentiated cell	4.76e-10	49
ectodermal cell	5.40e-10	44
neurectodermal cell	5.40e-10	44
neural cell	1.72e-09	43
electrically responsive cell	3.03e-09	39
electrically active cell	3.03e-09	39
neuron	8.81e-09	33
neuronal stem cell	8.81e-09	33
neuroblast	8.81e-09	33
electrically signaling cell	8.81e-09	33

Uber Anatomy

Ontology term	p-value	n
ectoderm-derived structure	1.38e-21	95
ectoderm	1.38e-21	95
presumptive ectoderm	1.38e-21	95
central nervous system	4.91e-20	73
ecto-epithelium	2.38e-19	73
nervous system	4.09e-19	75
regional part of nervous system	1.09e-18	54
neural tube	1.45e-17	52
neural rod	1.45e-17	52
future spinal cord	1.45e-17	52
neural keel	1.45e-17	52
neurectoderm	2.34e-16	64
neural plate	2.34e-16	64
presumptive neural plate	2.34e-16	64
gray matter	9.86e-15	34
brain	3.34e-14	47
future brain	3.34e-14	47
regional part of brain	8.28e-14	46
structure with developmental contribution from neural crest	1.42e-12	92
anterior neural tube	6.37e-12	40
pre-chordal neural plate	8.66e-12	49
brain grey matter	1.91e-11	29
regional part of telencephalon	1.91e-11	29
telencephalon	1.91e-11	29
regional part of forebrain	2.28e-11	39
forebrain	2.28e-11	39
future forebrain	2.28e-11	39
multi-cellular organism	1.02e-08	333
cerebral cortex	2.18e-07	21
cerebral hemisphere	2.18e-07	21
pallium	2.18e-07	21

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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