MCL coexpression mm9:914

Phase1 CAGE Peaks

	Short description
Mm9::chr11:69843315..69843339,+	p4@Dlg4
Mm9::chr6:137200818..137200847,+	p1@Ptpro
Mm9::chr6:137200913..137200944,+	p5@Ptpro
Mm9::chr6:137200950..137200995,+	p2@Ptpro
Mm9::chr6:137201001..137201024,+	p3@Ptpro
Mm9::chr6:137201025..137201036,+	p11@Ptpro
Mm9::chr6:137201056..137201065,+	p12@Ptpro
Mm9::chr7:86739877..86739895,-	p2@Rhcg

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:0031234	extrinsic to internal side of plasma membrane	0.0134302590628322
GO:0015696	ammonium transport	0.0134302590628322
GO:0008519	ammonium transmembrane transporter activity	0.0134302590628322
GO:0015695	organic cation transport	0.0134302590628322
GO:0016188	synaptic vesicle maturation	0.0134302590628322
GO:0015101	organic cation transmembrane transporter activity	0.0134302590628322
GO:0009898	internal side of plasma membrane	0.0134302590628322
GO:0005886	plasma membrane	0.0134302590628322
GO:0042043	neurexin binding	0.0134302590628322
GO:0048488	synaptic vesicle endocytosis	0.0134302590628322
GO:0042220	response to cocaine	0.0134302590628322
GO:0014073	response to tropane	0.0134302590628322
GO:0048169	regulation of long-term neuronal synaptic plasticity	0.0143232547723708
GO:0016050	vesicle organization and biogenesis	0.0143232547723708
GO:0014069	postsynaptic density	0.0143232547723708
GO:0048168	regulation of neuronal synaptic plasticity	0.0156643429534549
GO:0014070	response to organic cyclic substance	0.0168471944875181
GO:0043279	response to alkaloid	0.0169047651991126
GO:0007185	transmembrane receptor protein tyrosine phosphatase signaling pathway	0.0187066087753133
GO:0048167	regulation of synaptic plasticity	0.0187066087753133
GO:0050803	regulation of synapse structure and activity	0.0187066087753133
GO:0048489	synaptic vesicle transport	0.0187066087753133
GO:0010033	response to organic substance	0.0225536707671382
GO:0016324	apical plasma membrane	0.0357297021096922
GO:0019897	extrinsic to plasma membrane	0.0357297021096922
GO:0019717	synaptosome	0.0357297021096922
GO:0019898	extrinsic to membrane	0.0456120692889139
GO:0045177	apical part of cell	0.0490610155853036

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)	6.16e-19	23
neuroblast (sensu Vertebrata)	6.16e-19	23
neuron	2.51e-17	33
neuronal stem cell	2.51e-17	33
neuroblast	2.51e-17	33
electrically signaling cell	2.51e-17	33
neural cell	4.40e-13	43
electrically responsive cell	1.26e-12	39
electrically active cell	1.26e-12	39
ectodermal cell	1.78e-12	44
neurectodermal cell	1.78e-12	44
non-terminally differentiated cell	7.22e-10	49

Uber Anatomy

Ontology term	p-value	n
neurectoderm	4.25e-29	64
neural plate	4.25e-29	64
presumptive neural plate	4.25e-29	64
nervous system	9.29e-29	75
central nervous system	1.10e-28	73
ectoderm-derived structure	1.40e-27	95
ectoderm	1.40e-27	95
presumptive ectoderm	1.40e-27	95
pre-chordal neural plate	5.54e-26	49
regional part of nervous system	1.87e-25	54
ecto-epithelium	9.10e-25	73
neural tube	4.92e-24	52
neural rod	4.92e-24	52
future spinal cord	4.92e-24	52
neural keel	4.92e-24	52
anterior neural tube	6.20e-22	40
regional part of forebrain	3.38e-21	39
forebrain	3.38e-21	39
future forebrain	3.38e-21	39
brain	2.94e-20	47
future brain	2.94e-20	47
regional part of brain	2.25e-19	46
gray matter	1.48e-18	34
structure with developmental contribution from neural crest	6.06e-17	92
brain grey matter	1.52e-14	29
regional part of telencephalon	1.52e-14	29
telencephalon	1.52e-14	29
cerebral cortex	1.20e-08	21
cerebral hemisphere	1.20e-08	21
pallium	1.20e-08	21
diencephalon	1.07e-07	10
future diencephalon	1.07e-07	10
basal ganglion	1.17e-07	8
nuclear complex of neuraxis	1.17e-07	8
aggregate regional part of brain	1.17e-07	8
collection of basal ganglia	1.17e-07	8
cerebral subcortex	1.17e-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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