MCL coexpression mm9:609

Phase1 CAGE Peaks

	Short description
Mm9::chr11:98190955..98190968,-	p2@Neurod2
Mm9::chr13:83854880..83854907,+	p@chr13:83854880..83854907 +
Mm9::chr13:83854957..83854966,+	p@chr13:83854957..83854966 +
Mm9::chr13:83860754..83860760,-	p@chr13:83860754..83860760 -
Mm9::chr13:83860934..83860949,+	p2@ENSMUST00000131907
Mm9::chr13:83860962..83860989,+	p1@ENSMUST00000131907
Mm9::chr13:84487489..84487511,-	p@chr13:84487489..84487511 -
Mm9::chr16:6348617..6348642,+	p14@Rbfox1
Mm9::chr19:4711995..4712008,+	p5@Spnb3
Mm9::chr3:17954496..17954515,+	p3@Bhlhe22
Mm9::chr3:88011177..88011227,+	p1@uc008pug.1
Mm9::chr3:88016661..88016693,+	p@chr3:88016661..88016693 +

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:0002209	behavioral defense response	0.0108886210485948
GO:0001662	behavioral fear response	0.0108886210485948
GO:0008306	associative learning	0.0108886210485948
GO:0042596	fear response	0.0108886210485948
GO:0033555	multicellular organismal response to stress	0.0145181613981263
GO:0007612	learning	0.023712996950273
GO:0007611	learning and/or memory	0.0282067135735026

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)	2.10e-19	23
neuroblast (sensu Vertebrata)	2.10e-19	23
neural cell	1.85e-14	43
ectodermal cell	6.93e-14	44
neurectodermal cell	6.93e-14	44
neuron	9.97e-14	33
neuronal stem cell	9.97e-14	33
neuroblast	9.97e-14	33
electrically signaling cell	9.97e-14	33
non-terminally differentiated cell	2.10e-11	49
electrically responsive cell	2.79e-10	39
electrically active cell	2.79e-10	39
neuron of cerebral cortex	5.47e-08	6

Uber Anatomy

Ontology term	p-value	n
central nervous system	4.07e-33	73
neurectoderm	1.97e-32	64
neural plate	1.97e-32	64
presumptive neural plate	1.97e-32	64
nervous system	1.12e-31	75
regional part of nervous system	2.93e-31	54
gray matter	4.85e-31	34
neural tube	1.52e-30	52
neural rod	1.52e-30	52
future spinal cord	1.52e-30	52
neural keel	1.52e-30	52
ectoderm-derived structure	9.26e-29	95
ectoderm	9.26e-29	95
presumptive ectoderm	9.26e-29	95
brain grey matter	5.36e-27	29
regional part of telencephalon	5.36e-27	29
telencephalon	5.36e-27	29
brain	1.28e-26	47
future brain	1.28e-26	47
ecto-epithelium	4.65e-26	73
regional part of brain	1.22e-25	46
pre-chordal neural plate	1.29e-25	49
anterior neural tube	1.20e-22	40
regional part of forebrain	2.90e-22	39
forebrain	2.90e-22	39
future forebrain	2.90e-22	39
cerebral cortex	7.10e-21	21
cerebral hemisphere	7.10e-21	21
pallium	7.10e-21	21
structure with developmental contribution from neural crest	7.17e-17	92
regional part of cerebral cortex	1.17e-16	17
occipital lobe	4.13e-11	10
visual cortex	4.13e-11	10
neocortex	4.13e-11	10
posterior neural tube	3.15e-08	12
chordal neural plate	3.15e-08	12
basal ganglion	3.10e-07	8
nuclear complex of neuraxis	3.10e-07	8
aggregate regional part of brain	3.10e-07	8
collection of basal ganglia	3.10e-07	8
cerebral subcortex	3.10e-07	8
Ammon's horn	5.31e-07	7
lobe parts of cerebral cortex	5.31e-07	7
hippocampal formation	5.31e-07	7
limbic system	5.31e-07	7
limbic lobe	5.31e-07	7

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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