MCL coexpression mm9:2121

Phase1 CAGE Peaks

	Short description
Mm9::chr14:79826217..79826260,+	p1@Kbtbd7
Mm9::chr5:65884164..65884209,-	p2@1110003E01Rik
Mm9::chr9:121614114..121614159,-	p1@Sec22c
Mm9::chr9:26837595..26837699,-	p1@Vps26b

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:0030904	retromer complex	0.0123253901067192
GO:0007034	vacuolar transport	0.0328443011797946

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)	2.32e-13	23
neuroblast (sensu Vertebrata)	2.32e-13	23
ectodermal cell	4.68e-12	44
neurectodermal cell	4.68e-12	44
neural cell	6.58e-12	43
neuron	3.00e-11	33
neuronal stem cell	3.00e-11	33
neuroblast	3.00e-11	33
electrically signaling cell	3.00e-11	33
non-terminally differentiated cell	6.74e-09	49
electrically responsive cell	6.42e-08	39
electrically active cell	6.42e-08	39

Uber Anatomy

Ontology term	p-value	n
central nervous system	1.14e-30	73
ectoderm-derived structure	3.65e-29	95
ectoderm	3.65e-29	95
presumptive ectoderm	3.65e-29	95
nervous system	3.09e-28	75
neurectoderm	3.93e-28	64
neural plate	3.93e-28	64
presumptive neural plate	3.93e-28	64
regional part of nervous system	1.08e-27	54
ecto-epithelium	2.53e-27	73
neural tube	1.74e-26	52
neural rod	1.74e-26	52
future spinal cord	1.74e-26	52
neural keel	1.74e-26	52
brain	6.38e-24	47
future brain	6.38e-24	47
regional part of brain	2.19e-23	46
pre-chordal neural plate	2.10e-22	49
anterior neural tube	1.03e-20	40
regional part of forebrain	3.65e-20	39
forebrain	3.65e-20	39
future forebrain	3.65e-20	39
gray matter	1.73e-19	34
brain grey matter	3.97e-17	29
regional part of telencephalon	3.97e-17	29
telencephalon	3.97e-17	29
structure with developmental contribution from neural crest	1.31e-13	92
cerebral cortex	9.56e-13	21
cerebral hemisphere	9.56e-13	21
pallium	9.56e-13	21
regional part of cerebral cortex	2.53e-10	17
anatomical conduit	5.06e-07	122
occipital lobe	5.97e-07	10
visual cortex	5.97e-07	10
neocortex	5.97e-07	10

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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