MCL coexpression mm9:745

Phase1 CAGE Peaks

	Short description
Mm9::chr2:158436467..158436523,+	p2@Slc32a1
Mm9::chr2:22477648..22477664,+	p8@Gad2
Mm9::chr2:22477703..22477720,+	p12@Gad2
Mm9::chr2:22477797..22477823,+	p2@Gad2
Mm9::chr2:22477867..22477886,+	p6@Gad2
Mm9::chr2:22477904..22477917,+	p14@Gad2
Mm9::chr2:22477939..22477950,+	p13@Gad2
Mm9::chr2:22477966..22477981,+	p7@Gad2
Mm9::chr2:22477994..22478007,+	p4@Gad2
Mm9::chr6:138370756..138370767,+	p@chr6:138370756..138370767 +

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:0015495	gamma-aminobutyric acid:hydrogen symporter activity	0.00380347162330313
GO:0004351	glutamate decarboxylase activity	0.00380347162330313
GO:0031410	cytoplasmic vesicle	0.00380347162330313
GO:0031982	vesicle	0.00380347162330313
GO:0015816	glycine transport	0.00380347162330313
GO:0015187	glycine transmembrane transporter activity	0.00380347162330313
GO:0005280	hydrogen:amino acid symporter activity	0.00380347162330313
GO:0015295	solute:hydrogen symporter activity	0.00394423288447031
GO:0015185	L-gamma-aminobutyric acid transmembrane transporter activity	0.00394423288447031
GO:0015804	neutral amino acid transport	0.005324422636856
GO:0005416	cation:amino acid symporter activity	0.00665498125135951
GO:0015175	neutral amino acid transmembrane transporter activity	0.00665498125135951
GO:0042136	neurotransmitter biosynthetic process	0.00887233581121626
GO:0015179	L-amino acid transmembrane transporter activity	0.0145719859665723
GO:0016831	carboxy-lyase activity	0.0153732368546372
GO:0005275	amine transmembrane transporter activity	0.0177208447861533
GO:0015171	amino acid transmembrane transporter activity	0.0177208447861533
GO:0042133	neurotransmitter metabolic process	0.0177208447861533
GO:0016830	carbon-carbon lyase activity	0.0177208447861533
GO:0015370	solute:sodium symporter activity	0.0177208447861533
GO:0006865	amino acid transport	0.0177208447861533
GO:0030170	pyridoxal phosphate binding	0.0177208447861533
GO:0006836	neurotransmitter transport	0.0177208447861533
GO:0015294	solute:cation symporter activity	0.0177208447861533
GO:0015837	amine transport	0.0177208447861533
GO:0046943	carboxylic acid transmembrane transporter activity	0.0177208447861533
GO:0005342	organic acid transmembrane transporter activity	0.0177208447861533
GO:0044459	plasma membrane part	0.0177208447861533
GO:0046942	carboxylic acid transport	0.0177208447861533
GO:0015849	organic acid transport	0.0177208447861533
GO:0030424	axon	0.0177208447861533
GO:0001505	regulation of neurotransmitter levels	0.0243487777157163
GO:0005886	plasma membrane	0.0263596127669051
GO:0019842	vitamin binding	0.0273307827908039
GO:0043005	neuron projection	0.0293224578606538
GO:0015293	symporter activity	0.0326705636781114
GO:0016829	lyase activity	0.0363096803218342
GO:0048037	cofactor binding	0.0390584548816205
GO:0015291	secondary active transmembrane transporter activity	0.0398604143884566
GO:0007268	synaptic transmission	0.0419391827297904
GO:0019226	transmission of nerve impulse	0.0484067856014937

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)	1.23e-22	23
neuroblast (sensu Vertebrata)	1.23e-22	23
neuron	4.40e-13	33
neuronal stem cell	4.40e-13	33
neuroblast	4.40e-13	33
electrically signaling cell	4.40e-13	33
electrically responsive cell	8.19e-10	39
electrically active cell	8.19e-10	39
neural cell	3.49e-08	43
ectodermal cell	7.90e-08	44
neurectodermal cell	7.90e-08	44

Uber Anatomy

Ontology term	p-value	n
neurectoderm	1.98e-33	64
neural plate	1.98e-33	64
presumptive neural plate	1.98e-33	64
regional part of nervous system	8.30e-33	54
neural tube	3.60e-30	52
neural rod	3.60e-30	52
future spinal cord	3.60e-30	52
neural keel	3.60e-30	52
pre-chordal neural plate	1.41e-28	49
central nervous system	3.82e-27	73
ecto-epithelium	5.52e-27	73
gray matter	6.29e-27	34
brain	5.21e-26	47
future brain	5.21e-26	47
nervous system	6.34e-26	75
ectoderm-derived structure	1.20e-25	95
ectoderm	1.20e-25	95
presumptive ectoderm	1.20e-25	95
regional part of brain	6.59e-25	46
anterior neural tube	4.10e-23	40
brain grey matter	1.74e-22	29
regional part of telencephalon	1.74e-22	29
telencephalon	1.74e-22	29
regional part of forebrain	4.92e-22	39
forebrain	4.92e-22	39
future forebrain	4.92e-22	39
structure with developmental contribution from neural crest	1.14e-17	92
cerebral cortex	1.27e-14	21
cerebral hemisphere	1.27e-14	21
pallium	1.27e-14	21
regional part of cerebral cortex	6.59e-12	17
occipital lobe	1.83e-09	10
visual cortex	1.83e-09	10
neocortex	1.83e-09	10
basal ganglion	3.52e-09	8
nuclear complex of neuraxis	3.52e-09	8
aggregate regional part of brain	3.52e-09	8
collection of basal ganglia	3.52e-09	8
cerebral subcortex	3.52e-09	8
posterior neural tube	1.98e-07	12
chordal neural plate	1.98e-07	12

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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