MCL coexpression mm9:401

Phase1 CAGE Peaks

	Short description
Mm9::chr12:106575390..106575401,+	p2@uc007oyh.1
Mm9::chr12:91051249..91051258,+	p4@LOC100505240 p5@Nrxn3
Mm9::chr15:4325574..4325623,+	p2@Plcxd3
Mm9::chr1:107253057..107253093,-	p2@Rnf152
Mm9::chr1:84692551..84692569,-	p2@Dner
Mm9::chr1:84692741..84692753,-	p7@Dner
Mm9::chr1:84692757..84692777,-	p3@Dner
Mm9::chr3:97692834..97692852,-	p14@Pde4dip
Mm9::chr4:154719787..154719798,-	p5@Prkcz
Mm9::chr4:49857757..49857759,-	p@chr4:49857757..49857759 -
Mm9::chr5:151062497..151062511,+	p7@Fry
Mm9::chr5:27231364..27231415,+	p5@Dpp6
Mm9::chr5:69732910..69732924,-	p2@Kctd8
Mm9::chr5:69732938..69732953,-	p3@Kctd8
Mm9::chr6:63206101..63206120,+	p3@Grid2
Mm9::chr7:148667927..148667985,+	p@chr7:148667927..148667985 +
Mm9::chr9:107302127..107302180,+	p1@Cacna2d2
Mm9::chr9:107302189..107302203,+	p3@Cacna2d2
Mm9::chr9:64233453..64233464,+	p2@Megf11

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:0060134	prepulse inhibition	0.000470719502175586
GO:0048585	negative regulation of response to stimulus	0.000470719502175586
GO:0032102	negative regulation of response to external stimulus	0.000470719502175586
GO:0032101	regulation of response to external stimulus	0.000604812928979771
GO:0001964	startle response	0.00088618439085382
GO:0005216	ion channel activity	0.00103108625907904
GO:0022838	substrate specific channel activity	0.00103108625907904
GO:0004970	ionotropic glutamate receptor activity	0.00103108625907904
GO:0022803	passive transmembrane transporter activity	0.00103108625907904
GO:0015267	channel activity	0.00103108625907904
GO:0008066	glutamate receptor activity	0.00488962419320737
GO:0048583	regulation of response to stimulus	0.00488962419320737
GO:0005261	cation channel activity	0.00488962419320737
GO:0050905	neuromuscular process	0.00488962419320737
GO:0015075	ion transmembrane transporter activity	0.00488962419320737
GO:0022836	gated channel activity	0.00546079721263632
GO:0043025	cell soma	0.00578478784144084
GO:0006811	ion transport	0.00578478784144084
GO:0046873	metal ion transmembrane transporter activity	0.00578478784144084
GO:0045179	apical cortex	0.00578478784144084
GO:0022891	substrate-specific transmembrane transporter activity	0.00578478784144084
GO:0048741	skeletal muscle fiber development	0.00578478784144084
GO:0048747	muscle fiber development	0.00578478784144084
GO:0005262	calcium channel activity	0.00607398701555443
GO:0022857	transmembrane transporter activity	0.0087235199092231
GO:0004700	atypical protein kinase C activity	0.00945423206658046
GO:0030001	metal ion transport	0.0102199130653923
GO:0007519	skeletal muscle development	0.0102199130653923
GO:0044425	membrane part	0.0102199130653923
GO:0022892	substrate-specific transporter activity	0.0102199130653923
GO:0006816	calcium ion transport	0.0110408241806702
GO:0007220	Notch receptor processing	0.0115191890431605
GO:0045211	postsynaptic membrane	0.0115985942305008
GO:0022843	voltage-gated cation channel activity	0.0125769220468412
GO:0008324	cation transmembrane transporter activity	0.0125769220468412
GO:0006812	cation transport	0.0125769220468412
GO:0044456	synapse part	0.0125769220468412
GO:0014706	striated muscle development	0.0125769220468412
GO:0060024	rhythmic synaptic transmission	0.0125987378246049
GO:0015674	di-, tri-valent inorganic cation transport	0.0141581877252212
GO:0004972	N-methyl-D-aspartate selective glutamate receptor activity	0.0175386307102534
GO:0005112	Notch binding	0.0175386307102534
GO:0004274	dipeptidyl-peptidase IV activity	0.0192244577366487
GO:0007517	muscle development	0.0192244577366487
GO:0022832	voltage-gated channel activity	0.0192244577366487
GO:0005244	voltage-gated ion channel activity	0.0192244577366487
GO:0016021	integral to membrane	0.0225795367769959
GO:0051605	protein maturation via proteolysis	0.0225795367769959
GO:0031224	intrinsic to membrane	0.0225795367769959
GO:0051604	protein maturation	0.0245271979983456
GO:0008239	dipeptidyl-peptidase activity	0.0282851177934602
GO:0016806	dipeptidyl-peptidase and tripeptidyl-peptidase activity	0.0282851177934602
GO:0005891	voltage-gated calcium channel complex	0.032247943507392
GO:0044459	plasma membrane part	0.032247943507392
GO:0004697	protein kinase C activity	0.033400420144724
GO:0016020	membrane	0.0342180268267809
GO:0005515	protein binding	0.0342180268267809
GO:0001565	phorbol ester receptor activity	0.0352681340964569
GO:0005234	extracellular-glutamate-gated ion channel activity	0.0352681340964569
GO:0051969	regulation of transmission of nerve impulse	0.0394518387140763
GO:0007528	neuromuscular junction development	0.0394518387140763
GO:0050804	regulation of synaptic transmission	0.0394518387140763
GO:0005245	voltage-gated calcium channel activity	0.0407557438701065
GO:0031644	regulation of neurological process	0.0496031471657009

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>disease_data<br>

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Cell Type

Ontology term	p-value	n

Uber Anatomy

Ontology term	p-value	n

Disease

Ontology term	p-value	n

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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