MCL coexpression mm9:724

Phase1 CAGE Peaks

	Short description
Mm9::chr13:118391138..118391145,+	p4@Hcn1
Mm9::chr17:93598348..93598373,+	p3@Adcyap1
Mm9::chr3:34459134..34459146,+	p1@ENSMUST00000172935
Mm9::chr3:34459266..34459272,+	p4@ENSMUST00000172935
Mm9::chr3:34459282..34459308,+	p1@Sox2ot
Mm9::chr3:34459548..34459568,+	p@chr3:34459548..34459568 +
Mm9::chr5:82229760..82229765,+	p@chr5:82229760..82229765 +
Mm9::chr9:75445450..75445463,-	p8@Tmod2
Mm9::chr9:75445481..75445519,-	p6@Tmod2
Mm9::chr9:75445524..75445545,-	p9@Tmod2

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:0045745	positive regulation of G-protein coupled receptor protein signaling pathway	0.0239826601982353
GO:0005523	tropomyosin binding	0.0239826601982353
GO:0045176	apical protein localization	0.0239826601982353
GO:0008105	asymmetric protein localization	0.0239826601982353
GO:0030552	cAMP binding	0.0239826601982353
GO:0007190	adenylate cyclase activation	0.0239826601982353
GO:0031281	positive regulation of cyclase activity	0.0239826601982353
GO:0051349	positive regulation of lyase activity	0.0239826601982353
GO:0045762	positive regulation of adenylate cyclase activity	0.0239826601982353
GO:0016208	AMP binding	0.0239826601982353
GO:0045761	regulation of adenylate cyclase activity	0.0239826601982353
GO:0031279	regulation of cyclase activity	0.0239826601982353
GO:0008277	regulation of G-protein coupled receptor protein signaling pathway	0.0239826601982353
GO:0051339	regulation of lyase activity	0.0239826601982353
GO:0005184	neuropeptide hormone activity	0.0239826601982353
GO:0030551	cyclic nucleotide binding	0.0239826601982353
GO:0007270	nerve-nerve synaptic transmission	0.0285040806208462
GO:0005272	sodium channel activity	0.029160700324735
GO:0007189	G-protein signaling, adenylate cyclase activating pathway	0.0371704040420905
GO:0030425	dendrite	0.0483932198836574

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)	1.52e-10	23
neuroblast (sensu Vertebrata)	1.52e-10	23
ectodermal cell	1.25e-07	44
neurectodermal cell	1.25e-07	44
neuron	5.15e-07	33
neuronal stem cell	5.15e-07	33
neuroblast	5.15e-07	33
electrically signaling cell	5.15e-07	33
neural cell	6.63e-07	43

Uber Anatomy

Ontology term	p-value	n
neurectoderm	1.39e-30	64
neural plate	1.39e-30	64
presumptive neural plate	1.39e-30	64
ectoderm-derived structure	1.01e-29	95
ectoderm	1.01e-29	95
presumptive ectoderm	1.01e-29	95
ecto-epithelium	2.70e-28	73
regional part of nervous system	1.32e-26	54
nervous system	1.66e-25	75
pre-chordal neural plate	1.41e-24	49
neural tube	2.77e-24	52
neural rod	2.77e-24	52
future spinal cord	2.77e-24	52
neural keel	2.77e-24	52
central nervous system	3.70e-23	73
brain	6.89e-21	47
future brain	6.89e-21	47
regional part of brain	7.99e-20	46
structure with developmental contribution from neural crest	1.47e-19	92
gray matter	4.03e-19	34
anterior neural tube	1.03e-16	40
brain grey matter	5.17e-16	29
regional part of telencephalon	5.17e-16	29
telencephalon	5.17e-16	29
regional part of forebrain	1.38e-15	39
forebrain	1.38e-15	39
future forebrain	1.38e-15	39
cerebral cortex	2.53e-10	21
cerebral hemisphere	2.53e-10	21
pallium	2.53e-10	21
sense organ	3.26e-10	12
sensory system	3.26e-10	12
entire sense organ system	3.26e-10	12
regional part of cerebral cortex	3.38e-10	17
occipital lobe	1.04e-09	10
visual cortex	1.04e-09	10
neocortex	1.04e-09	10
eye	2.76e-09	9
camera-type eye	2.76e-09	9
simple eye	2.76e-09	9
immature eye	2.76e-09	9
ocular region	2.76e-09	9
visual system	2.76e-09	9
face	2.76e-09	9
optic cup	2.76e-09	9
optic vesicle	2.76e-09	9
eye primordium	2.76e-09	9
head	3.21e-09	13
ectodermal placode	3.21e-09	13
posterior neural tube	2.68e-08	12
chordal neural plate	2.68e-08	12
subdivision of head	3.03e-07	11
basal ganglion	3.78e-07	8
nuclear complex of neuraxis	3.78e-07	8
aggregate regional part of brain	3.78e-07	8
collection of basal ganglia	3.78e-07	8
cerebral subcortex	3.78e-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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