MCL coexpression mm9:1509

Phase1 CAGE Peaks

	Short description
Mm9::chr10:3494819..3494821,-	p@chr10:3494819..3494821 -
Mm9::chr11:118216810..118216811,-	p3@Timp2
Mm9::chr4:12833932..12833964,+	p1@Gm11818
Mm9::chrX:22862571..22862580,-	p7@Klhl13
Mm9::chrX:22862658..22862704,-	p6@Klhl13

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:0030814	regulation of cAMP metabolic process	0.0188963425644224
GO:0008191	metalloendopeptidase inhibitor activity	0.0188963425644224
GO:0030799	regulation of cyclic nucleotide metabolic process	0.0188963425644224
GO:0006140	regulation of nucleotide metabolic process	0.0188963425644224
GO:0043408	regulation of MAPKKK cascade	0.0237475910157745
GO:0046058	cAMP metabolic process	0.0237475910157745
GO:0005178	integrin binding	0.0237475910157745
GO:0045664	regulation of neuron differentiation	0.0254981794352035
GO:0009187	cyclic nucleotide metabolic process	0.031050996165266
GO:0032403	protein complex binding	0.0369972524037819
GO:0005604	basement membrane	0.0425419607155802

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)	4.74e-18	23
neuroblast (sensu Vertebrata)	4.74e-18	23
neuron	9.99e-12	33
neuronal stem cell	9.99e-12	33
neuroblast	9.99e-12	33
electrically signaling cell	9.99e-12	33
electrically responsive cell	1.52e-08	39
electrically active cell	1.52e-08	39
ectodermal cell	7.59e-08	44
neurectodermal cell	7.59e-08	44
neural cell	1.66e-07	43

Uber Anatomy

Ontology term	p-value	n
regional part of nervous system	2.10e-26	54
neurectoderm	4.63e-25	64
neural plate	4.63e-25	64
presumptive neural plate	4.63e-25	64
neural tube	9.77e-25	52
neural rod	9.77e-25	52
future spinal cord	9.77e-25	52
neural keel	9.77e-25	52
central nervous system	8.84e-23	73
nervous system	2.07e-22	75
ecto-epithelium	2.33e-22	73
gray matter	1.29e-21	34
ectoderm-derived structure	1.81e-21	95
ectoderm	1.81e-21	95
presumptive ectoderm	1.81e-21	95
pre-chordal neural plate	1.16e-20	49
brain	3.41e-20	47
future brain	3.41e-20	47
structure with developmental contribution from neural crest	1.03e-19	92
anterior neural tube	1.82e-19	40
regional part of brain	2.20e-19	46
regional part of forebrain	1.61e-18	39
forebrain	1.61e-18	39
future forebrain	1.61e-18	39
brain grey matter	3.50e-17	29
regional part of telencephalon	3.50e-17	29
telencephalon	3.50e-17	29
cerebral cortex	1.31e-10	21
cerebral hemisphere	1.31e-10	21
pallium	1.31e-10	21
regional part of cerebral cortex	8.76e-09	17
basal ganglion	3.65e-08	8
nuclear complex of neuraxis	3.65e-08	8
aggregate regional part of brain	3.65e-08	8
collection of basal ganglia	3.65e-08	8
cerebral subcortex	3.65e-08	8
occipital lobe	6.22e-07	10
visual cortex	6.22e-07	10
neocortex	6.22e-07	10
spinal cord	8.83e-07	6
dorsal region element	8.83e-07	6
dorsum	8.83e-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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