MCL coexpression mm9:251

Phase1 CAGE Peaks

	Short description
Mm9::chr10:101144309..101144320,+	p11@Mgat4c
Mm9::chr11:116094025..116094042,+	p@chr11:116094025..116094042 +
Mm9::chr11:34214757..34214786,+	p1@Fam196b
Mm9::chr11:83223222..83223229,+	p3@Rasl10b
Mm9::chr11:83223238..83223251,+	p4@Rasl10b
Mm9::chr12:118392499..118392529,+	p@chr12:118392499..118392529 +
Mm9::chr12:35591550..35591565,-	p4@Hdac9
Mm9::chr12:35591579..35591625,-	p3@Hdac9
Mm9::chr12:89963414..89963443,+	p5@LOC100505240 p6@Nrxn3
Mm9::chr12:89964039..89964051,+	p@chr12:89964039..89964051 +
Mm9::chr15:48623701..48623720,-	p2@Csmd3
Mm9::chr15:76351357..76351367,+	p@chr15:76351357..76351367 +
Mm9::chr16:11984249..11984263,+	p4@Shisa9
Mm9::chr16:96689316..96689332,+	p1@Pcp4
Mm9::chr1:72583270..72583295,+	p@chr1:72583270..72583295 +
Mm9::chr2:144353262..144353273,-	p5@6330439K17Rik
Mm9::chr2:22477768..22477780,+	p10@Gad2
Mm9::chr2:22478013..22478038,+	p5@Gad2
Mm9::chr2:22478051..22478112,+	p1@Gad2
Mm9::chr2:22478133..22478157,+	p3@Gad2
Mm9::chr2:22478162..22478173,+	p9@Gad2
Mm9::chr2:70400169..70400180,+	p5@Gad1
Mm9::chr2:70400189..70400200,+	p4@Gad1
Mm9::chr2:70400204..70400265,+	p1@Gad1
Mm9::chr2:70401608..70401629,+	p11@Gad1
Mm9::chr2:81893447..81893468,+	p2@Zfp804a
Mm9::chr3:107989328..107989342,+	p3@Amigo1
Mm9::chr4:150513630..150513686,-	p4@Camta1
Mm9::chr5:108798425..108798450,-	p@chr5:108798425..108798450 -
Mm9::chr6:119280686..119280712,-	p3@Lrtm2
Mm9::chr6:55401822..55401866,+	p2@Adcyap1r1
Mm9::chr7:116925052..116925068,-	p1@Nrip3
Mm9::chr8:10249334..10249366,+	p@chr8:10249334..10249366 +

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:0004351	glutamate decarboxylase activity	0.000125101396125337
GO:0042136	neurotransmitter biosynthetic process	0.00485548292280011
GO:0016831	carboxy-lyase activity	0.0134108165512253
GO:0042133	neurotransmitter metabolic process	0.0173138834580098
GO:0016830	carbon-carbon lyase activity	0.0173138834580098
GO:0030170	pyridoxal phosphate binding	0.0199060448512584
GO:0019226	transmission of nerve impulse	0.0199060448512584
GO:0030424	axon	0.0288034153263468
GO:0007267	cell-cell signaling	0.0438793215454578
GO:0001505	regulation of neurotransmitter levels	0.0438793215454578
GO:0008454	alpha-1,3-mannosylglycoprotein 4-beta-N-acetylglucosaminyltransferase activity	0.0438793215454578
GO:0004999	vasoactive intestinal polypeptide receptor activity	0.0438793215454578

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)	2.00e-19	23
neuroblast (sensu Vertebrata)	2.00e-19	23
neuron	5.70e-12	33
neuronal stem cell	5.70e-12	33
neuroblast	5.70e-12	33
electrically signaling cell	5.70e-12	33
electrically responsive cell	6.28e-09	39
electrically active cell	6.28e-09	39
ectodermal cell	1.05e-07	44
neurectodermal cell	1.05e-07	44
neural cell	2.04e-07	43

Uber Anatomy

Ontology term	p-value	n
neurectoderm	7.15e-34	64
neural plate	7.15e-34	64
presumptive neural plate	7.15e-34	64
regional part of nervous system	2.90e-33	54
neural tube	6.61e-31	52
neural rod	6.61e-31	52
future spinal cord	6.61e-31	52
neural keel	6.61e-31	52
ecto-epithelium	1.86e-29	73
pre-chordal neural plate	1.92e-28	49
central nervous system	2.68e-28	73
ectoderm-derived structure	2.26e-27	95
ectoderm	2.26e-27	95
presumptive ectoderm	2.26e-27	95
nervous system	4.92e-27	75
brain	2.53e-26	47
future brain	2.53e-26	47
gray matter	9.07e-26	34
regional part of brain	3.44e-25	46
anterior neural tube	3.03e-23	40
regional part of forebrain	3.81e-22	39
forebrain	3.81e-22	39
future forebrain	3.81e-22	39
brain grey matter	3.43e-21	29
regional part of telencephalon	3.43e-21	29
telencephalon	3.43e-21	29
structure with developmental contribution from neural crest	1.88e-19	92
cerebral cortex	7.22e-14	21
cerebral hemisphere	7.22e-14	21
pallium	7.22e-14	21
regional part of cerebral cortex	8.03e-12	17
occipital lobe	2.10e-10	10
visual cortex	2.10e-10	10
neocortex	2.10e-10	10
basal ganglion	1.21e-08	8
nuclear complex of neuraxis	1.21e-08	8
aggregate regional part of brain	1.21e-08	8
collection of basal ganglia	1.21e-08	8
cerebral subcortex	1.21e-08	8
posterior neural tube	5.57e-08	12
chordal neural plate	5.57e-08	12
spinal cord	9.73e-07	6
dorsal region element	9.73e-07	6
dorsum	9.73e-07	6

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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