MCL coexpression mm9:487

Phase1 CAGE Peaks

	Short description
Mm9::chr11:118162901..118162927,-	p@chr11:118162901..118162927 -
Mm9::chr11:118163704..118163718,-	p@chr11:118163704..118163718 -
Mm9::chr11:118163721..118163737,-	p@chr11:118163721..118163737 -
Mm9::chr11:118164101..118164114,-	p@chr11:118164101..118164114 -
Mm9::chr11:118164239..118164253,-	p@chr11:118164239..118164253 -
Mm9::chr11:118164803..118164838,-	p@chr11:118164803..118164838 -
Mm9::chr11:118164951..118164973,-	p@chr11:118164951..118164973 -
Mm9::chr11:118165049..118165059,-	p@chr11:118165049..118165059 -
Mm9::chr11:118171948..118171959,-	p@chr11:118171948..118171959 -
Mm9::chr11:118178793..118178819,-	p@chr11:118178793..118178819 -
Mm9::chr11:118216631..118216648,-	p1@Timp2
Mm9::chr15:78004356..78004377,-	p3@Ift27
Mm9::chr1:64663727..64663812,-	p1@Mettl21a
Mm9::chr2:32535786..32535820,+	p@chr2:32535786..32535820 +
Mm9::chr3:137286995..137287026,+	p3@Ddit4l

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:0009966	regulation of signal transduction	0.0227247792029203
GO:0030814	regulation of cAMP metabolic process	0.0227247792029203
GO:0008191	metalloendopeptidase inhibitor activity	0.0227247792029203
GO:0030799	regulation of cyclic nucleotide metabolic process	0.0227247792029203
GO:0017015	regulation of transforming growth factor beta receptor signaling pathway	0.0227247792029203
GO:0006140	regulation of nucleotide metabolic process	0.0227247792029203
GO:0043408	regulation of MAPKKK cascade	0.0333077639652004
GO:0046058	cAMP metabolic process	0.0333077639652004
GO:0005178	integrin binding	0.0333077639652004
GO:0045664	regulation of neuron differentiation	0.0367798578299882
GO:0009187	cyclic nucleotide metabolic process	0.0457949130069618

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
non-terminally differentiated cell	2.56e-11	49
neural cell	3.91e-08	43
ectodermal cell	6.35e-08	44
neurectodermal cell	6.35e-08	44
migratory neural crest cell	9.06e-07	10
neuron associated cell	9.06e-07	10
glial cell (sensu Vertebrata)	9.06e-07	10
neuron associated cell (sensu Vertebrata)	9.06e-07	10
glial cell	9.06e-07	10
glioblast	9.06e-07	10
glioblast (sensu Vertebrata)	9.06e-07	10

Uber Anatomy

Ontology term	p-value	n
ectoderm-derived structure	3.64e-14	95
ectoderm	3.64e-14	95
presumptive ectoderm	3.64e-14	95
nervous system	3.06e-13	75
central nervous system	8.63e-13	73
structure with developmental contribution from neural crest	1.79e-08	92
ecto-epithelium	2.63e-08	73
neurectoderm	5.55e-08	64
neural plate	5.55e-08	64
presumptive neural plate	5.55e-08	64
regional part of nervous system	1.57e-07	54
neural tube	5.17e-07	52
neural rod	5.17e-07	52
future spinal cord	5.17e-07	52
neural keel	5.17e-07	52

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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