MCL coexpression mm9:2583

Phase1 CAGE Peaks

	Short description
Mm9::chr10:79256403..79256418,+	p3@Palm
Mm9::chr10:79256422..79256466,+	p2@Palm
Mm9::chr9:43915309..43915318,+	p3@C1qtnf5

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:0031280	negative regulation of cyclase activity	0.00271188297814058
GO:0031750	D3 dopamine receptor binding	0.00271188297814058
GO:0007194	negative regulation of adenylate cyclase activity	0.00271188297814058
GO:0051350	negative regulation of lyase activity	0.00271188297814058
GO:0030803	negative regulation of cyclic nucleotide biosynthetic process	0.00361564586412767
GO:0030815	negative regulation of cAMP metabolic process	0.00361564586412767
GO:0030818	negative regulation of cAMP biosynthetic process	0.00361564586412767
GO:0030800	negative regulation of cyclic nucleotide metabolic process	0.00361564586412767
GO:0030809	negative regulation of nucleotide biosynthetic process	0.00361564586412767
GO:0050780	dopamine receptor binding	0.00394423288447031
GO:0045980	negative regulation of nucleotide metabolic process	0.00394423288447031
GO:0030817	regulation of cAMP biosynthetic process	0.00451930969675155
GO:0030814	regulation of cAMP metabolic process	0.00500586743636034
GO:0030802	regulation of cyclic nucleotide biosynthetic process	0.00506134951094473
GO:0030808	regulation of nucleotide biosynthetic process	0.00506134951094473
GO:0030799	regulation of cyclic nucleotide metabolic process	0.00610039948041288
GO:0006140	regulation of nucleotide metabolic process	0.00637932792456203
GO:0045761	regulation of adenylate cyclase activity	0.00929355444946137
GO:0006171	cAMP biosynthetic process	0.00929355444946137
GO:0031279	regulation of cyclase activity	0.00929355444946137
GO:0051339	regulation of lyase activity	0.00929355444946137
GO:0046058	cAMP metabolic process	0.00985625988259906
GO:0009190	cyclic nucleotide biosynthetic process	0.0131959235010422
GO:0009890	negative regulation of biosynthetic process	0.0144510932663776
GO:0009187	cyclic nucleotide metabolic process	0.0160385145410157
GO:0022603	regulation of anatomical structure morphogenesis	0.017558328957814
GO:0043086	negative regulation of catalytic activity	0.017558328957814
GO:0008360	regulation of cell shape	0.017558328957814
GO:0022604	regulation of cell morphogenesis	0.017558328957814
GO:0001664	G-protein-coupled receptor binding	0.0192171512814409
GO:0007188	G-protein signaling, coupled to cAMP nucleotide second messenger	0.0192171512814409
GO:0007187	G-protein signaling, coupled to cyclic nucleotide second messenger	0.0196304512397573
GO:0019933	cAMP-mediated signaling	0.0196909081223145
GO:0019935	cyclic-nucleotide-mediated signaling	0.0200657000935663
GO:0007601	visual perception	0.0333457699333277
GO:0050953	sensory perception of light stimulus	0.0333457699333277
GO:0009165	nucleotide biosynthetic process	0.0349944010773654
GO:0019932	second-messenger-mediated signaling	0.0349944010773654
GO:0009889	regulation of biosynthetic process	0.042930108592493
GO:0009117	nucleotide metabolic process	0.048843045011325

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
non-terminally differentiated cell	4.27e-17	49
electrically responsive cell	1.41e-13	39
electrically active cell	1.41e-13	39
ectodermal cell	1.50e-13	44
neurectodermal cell	1.50e-13	44
neural cell	2.22e-13	43
neuron	5.02e-10	33
neuronal stem cell	5.02e-10	33
neuroblast	5.02e-10	33
electrically signaling cell	5.02e-10	33
embryonic cell	2.19e-07	70

Uber Anatomy

Ontology term	p-value	n
central nervous system	1.38e-25	73
nervous system	1.53e-24	75
ectoderm-derived structure	1.98e-22	95
ectoderm	1.98e-22	95
presumptive ectoderm	1.98e-22	95
structure with developmental contribution from neural crest	8.00e-20	92
regional part of nervous system	1.36e-16	54
neurectoderm	2.82e-16	64
neural plate	2.82e-16	64
presumptive neural plate	2.82e-16	64
neural tube	1.09e-15	52
neural rod	1.09e-15	52
future spinal cord	1.09e-15	52
neural keel	1.09e-15	52
ecto-epithelium	1.10e-15	73
brain	1.14e-14	47
future brain	1.14e-14	47
regional part of brain	2.06e-14	46
anterior neural tube	9.46e-12	40
regional part of forebrain	2.16e-11	39
forebrain	2.16e-11	39
future forebrain	2.16e-11	39
pre-chordal neural plate	6.63e-11	49
gray matter	1.29e-10	34
brain grey matter	6.15e-10	29
regional part of telencephalon	6.15e-10	29
telencephalon	6.15e-10	29
anatomical conduit	4.61e-09	122
tube	4.81e-09	114
regional part of cerebral cortex	9.54e-08	17
cerebral cortex	1.08e-07	21
cerebral hemisphere	1.08e-07	21
pallium	1.08e-07	21

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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