MCL coexpression mm9:544

Phase1 CAGE Peaks

	Short description
Mm9::chr16:75092953..75092979,-	p@chr16:75092953..75092979 -
Mm9::chr18:23200112..23200123,-	p4@Nol4
Mm9::chr18:77800445..77800450,-	p@chr18:77800445..77800450 -
Mm9::chr1:106677500..106677503,+	p@chr1:106677500..106677503 +
Mm9::chr3:25330641..25330645,-	p@chr3:25330641..25330645 -
Mm9::chr3:25497991..25497995,-	p@chr3:25497991..25497995 -
Mm9::chr3:25746206..25746219,-	p@chr3:25746206..25746219 -
Mm9::chr3:25835662..25835666,-	p@chr3:25835662..25835666 -
Mm9::chr3:26001283..26001284,-	p@chr3:26001283..26001284 -
Mm9::chr3:26015244..26015245,-	p@chr3:26015244..26015245 -
Mm9::chr3:26230752..26230771,-	p7@Nlgn1
Mm9::chr5:99792484..99792489,-	p@chr5:99792484..99792489 -
Mm9::chr7:129814314..129814341,+	p@chr7:129814314..129814341 +
Mm9::chr7:71650246..71650250,+	p@chr7:71650246..71650250 +

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:0016080	synaptic vesicle targeting	0.017307005837869
GO:0006903	vesicle targeting	0.017307005837869
GO:0042043	neurexin binding	0.017307005837869
GO:0016079	synaptic vesicle exocytosis	0.017307005837869
GO:0051650	establishment of vesicle localization	0.017307005837869
GO:0051648	vesicle localization	0.017307005837869
GO:0007416	synaptogenesis	0.0212316856430153
GO:0051656	establishment of organelle localization	0.0212316856430153
GO:0048489	synaptic vesicle transport	0.0212316856430153
GO:0051640	organelle localization	0.0212316856430153
GO:0045664	regulation of neuron differentiation	0.0212316856430153
GO:0050808	synapse organization and biogenesis	0.0317016877136253
GO:0007269	neurotransmitter secretion	0.0339120770595599
GO:0045055	regulated secretory pathway	0.0395025018332462
GO:0006887	exocytosis	0.044701314499151
GO:0003001	generation of a signal involved in cell-cell signaling	0.044701314499151
GO:0001505	regulation of neurotransmitter levels	0.044701314499151
GO:0043062	extracellular structure organization and biogenesis	0.0474808004265753
GO:0045211	postsynaptic membrane	0.0495118245516327

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)	1.73e-07	23
neuroblast (sensu Vertebrata)	1.73e-07	23

Uber Anatomy

Ontology term	p-value	n
neurectoderm	1.92e-26	64
neural plate	1.92e-26	64
presumptive neural plate	1.92e-26	64
pre-chordal neural plate	4.17e-23	49
ecto-epithelium	4.26e-21	73
regional part of nervous system	2.60e-20	54
neural tube	3.07e-20	52
neural rod	3.07e-20	52
future spinal cord	3.07e-20	52
neural keel	3.07e-20	52
ectoderm-derived structure	4.27e-18	95
ectoderm	4.27e-18	95
presumptive ectoderm	4.27e-18	95
brain	7.65e-18	47
future brain	7.65e-18	47
regional part of brain	6.22e-17	46
gray matter	1.18e-16	34
central nervous system	1.89e-16	73
nervous system	1.28e-15	75
anterior neural tube	3.73e-15	40
structure with developmental contribution from neural crest	8.57e-15	92
brain grey matter	2.59e-14	29
regional part of telencephalon	2.59e-14	29
telencephalon	2.59e-14	29
regional part of forebrain	2.62e-14	39
forebrain	2.62e-14	39
future forebrain	2.62e-14	39
occipital lobe	1.04e-11	10
visual cortex	1.04e-11	10
neocortex	1.04e-11	10
cerebral cortex	3.27e-10	21
cerebral hemisphere	3.27e-10	21
pallium	3.27e-10	21
eye	1.09e-09	9
camera-type eye	1.09e-09	9
simple eye	1.09e-09	9
immature eye	1.09e-09	9
ocular region	1.09e-09	9
visual system	1.09e-09	9
face	1.09e-09	9
optic cup	1.09e-09	9
optic vesicle	1.09e-09	9
eye primordium	1.09e-09	9
regional part of cerebral cortex	2.15e-09	17
subdivision of head	2.04e-07	11

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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