MCL coexpression mm9:1322

Phase1 CAGE Peaks

	Short description
Mm9::chr12:114252596..114252681,+	p1@Pacs2
Mm9::chr4:119165168..119165223,-	p1@Rimkla
Mm9::chr5:135164426..135164433,-	p5@Limk1
Mm9::chr5:135164438..135164457,-	p2@Limk1
Mm9::chr5:135164465..135164507,-	p1@Limk1
Mm9::chr5:135164509..135164520,-	p4@Limk1

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:0045773	positive regulation of axon extension	0.0383141410538382
GO:0050772	positive regulation of axonogenesis	0.0383141410538382
GO:0030516	regulation of axon extension	0.0383141410538382
GO:0050769	positive regulation of neurogenesis	0.0383141410538382
GO:0048675	axon extension	0.0383141410538382
GO:0005925	focal adhesion	0.0383141410538382
GO:0050770	regulation of axonogenesis	0.0383141410538382
GO:0005924	cell-substrate adherens junction	0.0383141410538382
GO:0048468	cell development	0.0383141410538382
GO:0030055	cell-matrix junction	0.0383141410538382
GO:0050767	regulation of neurogenesis	0.0447704829281724
GO:0046982	protein heterodimerization activity	0.049626476547434
GO:0005912	adherens junction	0.049626476547434
GO:0051094	positive regulation of developmental process	0.049626476547434
GO:0016323	basolateral plasma membrane	0.049626476547434
GO:0048869	cellular developmental process	0.049626476547434
GO:0030154	cell differentiation	0.049626476547434

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
neural cell	6.57e-18	43
ectodermal cell	8.51e-18	44
neurectodermal cell	8.51e-18	44
neuron	1.31e-17	33
neuronal stem cell	1.31e-17	33
neuroblast	1.31e-17	33
electrically signaling cell	1.31e-17	33
CNS neuron (sensu Vertebrata)	3.24e-15	23
neuroblast (sensu Vertebrata)	3.24e-15	23
non-terminally differentiated cell	5.37e-15	49
electrically responsive cell	3.94e-14	39
electrically active cell	3.94e-14	39

Uber Anatomy

Ontology term	p-value	n
nervous system	9.33e-32	75
central nervous system	1.18e-31	73
ectoderm-derived structure	9.34e-29	95
ectoderm	9.34e-29	95
presumptive ectoderm	9.34e-29	95
neurectoderm	2.57e-26	64
neural plate	2.57e-26	64
presumptive neural plate	2.57e-26	64
regional part of nervous system	1.73e-24	54
neural tube	4.36e-23	52
neural rod	4.36e-23	52
future spinal cord	4.36e-23	52
neural keel	4.36e-23	52
ecto-epithelium	1.29e-22	73
structure with developmental contribution from neural crest	1.19e-19	92
brain	4.40e-19	47
future brain	4.40e-19	47
regional part of brain	8.29e-19	46
pre-chordal neural plate	2.23e-18	49
gray matter	1.24e-17	34
anterior neural tube	1.01e-16	40
regional part of forebrain	4.39e-16	39
forebrain	4.39e-16	39
future forebrain	4.39e-16	39
brain grey matter	3.22e-14	29
regional part of telencephalon	3.22e-14	29
telencephalon	3.22e-14	29
cerebral cortex	2.03e-09	21
cerebral hemisphere	2.03e-09	21
pallium	2.03e-09	21
multi-cellular organism	2.78e-08	333
regional part of cerebral cortex	2.01e-07	17
embryo	4.45e-07	320
posterior neural tube	4.87e-07	12
chordal neural plate	4.87e-07	12

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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