MCL coexpression mm9:362

Phase1 CAGE Peaks

	Short description
Mm9::chr10:106069742..106069754,+	p@chr10:106069742..106069754 +
Mm9::chr11:56825300..56825329,+	p1@Gria1
Mm9::chr11:56825334..56825345,+	p3@Gria1
Mm9::chr11:56825447..56825448,+	p10@Gria1
Mm9::chr13:96214655..96214666,-	p2@Crhbp
Mm9::chr14:56129430..56129468,+	p1@Cpne6
Mm9::chr14:76362222..76362254,+	p@chr14:76362222..76362254 +
Mm9::chr14:76362263..76362291,+	p@chr14:76362263..76362291 +
Mm9::chr14:88870750..88870829,-	p@chr14:88870750..88870829 -
Mm9::chr16:34514130..34514142,-	p17@Kalrn
Mm9::chr16:34514149..34514165,-	p11@Kalrn
Mm9::chr16:34514170..34514214,-	p3@Kalrn
Mm9::chr16:34514261..34514270,-	p19@Kalrn
Mm9::chr16:34514291..34514297,-	p27@Kalrn
Mm9::chr16:60605097..60605117,-	p1@Epha6
Mm9::chr16:60605371..60605385,-	p3@Epha6
Mm9::chr16:60605417..60605435,-	p4@Epha6
Mm9::chr16:7217845..7217853,+	p33@Rbfox1
Mm9::chr18:86564394..86564405,+	p5@Neto1
Mm9::chr6:136123290..136123321,-	p@chr6:136123290..136123321 -
Mm9::chr7:98691574..98691605,+	p17@Dlg2

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:0014069	postsynaptic density	0.00256092968317102
GO:0007613	memory	0.00256092968317102
GO:0005234	extracellular-glutamate-gated ion channel activity	0.00256092968317102
GO:0004970	ionotropic glutamate receptor activity	0.00256092968317102
GO:0005231	excitatory extracellular ligand-gated ion channel activity	0.0104762422911387
GO:0008066	glutamate receptor activity	0.0104762422911387
GO:0022836	gated channel activity	0.0111973697202879
GO:0017047	adrenocorticotropin-releasing hormone binding	0.014207378685594
GO:0005230	extracellular ligand-gated ion channel activity	0.014207378685594
GO:0007611	learning and/or memory	0.014207378685594
GO:0005216	ion channel activity	0.014207378685594
GO:0022838	substrate specific channel activity	0.014207378685594
GO:0015276	ligand-gated ion channel activity	0.014207378685594
GO:0022834	ligand-gated channel activity	0.014207378685594
GO:0022803	passive transmembrane transporter activity	0.014207378685594
GO:0015267	channel activity	0.014207378685594
GO:0017046	peptide hormone binding	0.0160449762951106
GO:0005624	membrane fraction	0.0185930011660257
GO:0045211	postsynaptic membrane	0.0185930011660257
GO:0007616	long-term memory	0.0185930011660257
GO:0001786	phosphatidylserine binding	0.0185930011660257
GO:0050966	detection of mechanical stimulus during sensory perception of pain	0.0185930011660257
GO:0044456	synapse part	0.0205067839558832
GO:0000267	cell fraction	0.0215318161976552
GO:0031623	receptor internalization	0.0218104098803347
GO:0017146	N-methyl-D-aspartate selective glutamate receptor complex	0.0252373070572831
GO:0048266	behavioral response to pain	0.0252373070572831
GO:0004972	N-methyl-D-aspartate selective glutamate receptor activity	0.0291959709185147
GO:0001967	suckling behavior	0.0314401883232241
GO:0042562	hormone binding	0.0314401883232241
GO:0015075	ion transmembrane transporter activity	0.0314401883232241
GO:0060079	regulation of excitatory postsynaptic membrane potential	0.0330135045063673
GO:0035254	glutamate receptor binding	0.0330135045063673
GO:0045471	response to ethanol	0.0358193650359458
GO:0006811	ion transport	0.0358193650359458
GO:0008328	ionotropic glutamate receptor complex	0.0358193650359458
GO:0001662	behavioral fear response	0.0358193650359458
GO:0002209	behavioral defense response	0.0358193650359458
GO:0022891	substrate-specific transmembrane transporter activity	0.0371035929292651
GO:0050974	detection of mechanical stimulus during sensory perception	0.0371035929292651
GO:0048265	response to pain	0.0371035929292651
GO:0060078	regulation of postsynaptic membrane potential	0.0371035929292651
GO:0001964	startle response	0.0371035929292651
GO:0042734	presynaptic membrane	0.0371035929292651
GO:0050982	detection of mechanical stimulus	0.0392926393149871
GO:0005261	cation channel activity	0.0396606778395125
GO:0005003	ephrin receptor activity	0.0396606778395125
GO:0048168	regulation of neuronal synaptic plasticity	0.0396606778395125
GO:0042596	fear response	0.0416161106041566
GO:0006898	receptor-mediated endocytosis	0.0427397751399025
GO:0022857	transmembrane transporter activity	0.0427397751399025
GO:0009612	response to mechanical stimulus	0.0435838236247918
GO:0051899	membrane depolarization	0.0435838236247918
GO:0005856	cytoskeleton	0.0448179055878803
GO:0046873	metal ion transmembrane transporter activity	0.0449524136953147

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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