MCL coexpression mm9:3418

Phase1 CAGE Peaks

	Short description
Mm9::chr3:84109307..84109378,-	p7@Trim2
Mm9::chr6:137200798..137200815,+	p4@Ptpro
Mm9::chr6:137200859..137200875,+	p8@Ptpro

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:0007185	transmembrane receptor protein tyrosine phosphatase signaling pathway	0.0350627294143428

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)	4.50e-19	23
neuroblast (sensu Vertebrata)	4.50e-19	23
neuron	1.14e-18	33
neuronal stem cell	1.14e-18	33
neuroblast	1.14e-18	33
electrically signaling cell	1.14e-18	33
ectodermal cell	2.57e-15	44
neurectodermal cell	2.57e-15	44
neural cell	3.16e-15	43
electrically responsive cell	1.41e-13	39
electrically active cell	1.41e-13	39
non-terminally differentiated cell	1.60e-11	49

Uber Anatomy

Ontology term	p-value	n
central nervous system	4.03e-31	73
nervous system	4.66e-31	75
ectoderm-derived structure	1.41e-28	95
ectoderm	1.41e-28	95
presumptive ectoderm	1.41e-28	95
neurectoderm	6.91e-28	64
neural plate	6.91e-28	64
presumptive neural plate	6.91e-28	64
regional part of nervous system	1.61e-26	54
pre-chordal neural plate	2.42e-25	49
neural tube	1.31e-24	52
neural rod	1.31e-24	52
future spinal cord	1.31e-24	52
neural keel	1.31e-24	52
ecto-epithelium	1.38e-23	73
anterior neural tube	2.53e-22	40
regional part of forebrain	1.33e-21	39
forebrain	1.33e-21	39
future forebrain	1.33e-21	39
brain	1.78e-21	47
future brain	1.78e-21	47
gray matter	1.02e-20	34
regional part of brain	1.32e-20	46
brain grey matter	3.76e-17	29
regional part of telencephalon	3.76e-17	29
telencephalon	3.76e-17	29
structure with developmental contribution from neural crest	2.11e-15	92
cerebral cortex	4.79e-11	21
cerebral hemisphere	4.79e-11	21
pallium	4.79e-11	21
regional part of cerebral cortex	4.49e-08	17
basal ganglion	1.51e-07	8
nuclear complex of neuraxis	1.51e-07	8
aggregate regional part of brain	1.51e-07	8
collection of basal ganglia	1.51e-07	8
cerebral subcortex	1.51e-07	8

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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