MCL coexpression mm9:1392

Phase1 CAGE Peaks

	Short description
Mm9::chr17:23723181..23723236,-	p1@Zfp13
Mm9::chr18:60907987..60908064,-	p2@Ndst1
Mm9::chr2:130249978..130250029,-	p1@Fam113a
Mm9::chr7:25858091..25858144,-	p@chr7:25858091..25858144 -
Mm9::chr7:25858149..25858183,-	p@chr7:25858149..25858183 -
Mm9::chr7:87065485..87065544,-	p1@Ap3s2

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:0048702	embryonic neurocranium morphogenesis	0.0153391036659962
GO:0051923	sulfation	0.0153391036659962
GO:0006477	protein amino acid sulfation	0.0153391036659962
GO:0048703	embryonic viscerocranium morphogenesis	0.0184049074230457
GO:0015016	[heparan sulfate]-glucosamine N-sulfotransferase activity	0.0184049074230457
GO:0048701	embryonic cranial skeleton morphogenesis	0.0230036132428184
GO:0006476	protein amino acid deacetylation	0.026286962732604
GO:0048704	embryonic skeletal morphogenesis	0.0272973368109995
GO:0030901	midbrain development	0.0272973368109995
GO:0008543	fibroblast growth factor receptor signaling pathway	0.0272973368109995
GO:0048706	embryonic skeletal development	0.0272973368109995
GO:0005794	Golgi apparatus	0.0272973368109995
GO:0006022	aminoglycan metabolic process	0.0272973368109995
GO:0030203	glycosaminoglycan metabolic process	0.0272973368109995
GO:0007585	respiratory gaseous exchange	0.0272973368109995
GO:0000271	polysaccharide biosynthetic process	0.0272973368109995
GO:0048705	skeletal morphogenesis	0.0290285459467753
GO:0030119	AP-type membrane coat adaptor complex	0.0290285459467753
GO:0030131	clathrin adaptor complex	0.0290285459467753
GO:0007224	smoothened signaling pathway	0.0321662516056839
GO:0005802	trans-Golgi network	0.0350032099612206
GO:0030118	clathrin coat	0.0354965224870329
GO:0008146	sulfotransferase activity	0.0439153450651711
GO:0016782	transferase activity, transferring sulfur-containing groups	0.0458913605078615
GO:0030117	membrane coat	0.0458913605078615
GO:0048475	coated membrane	0.0458913605078615

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
ectodermal cell	1.46e-14	44
neurectodermal cell	1.46e-14	44
neural cell	1.79e-14	43
CNS neuron (sensu Vertebrata)	9.35e-14	23
neuroblast (sensu Vertebrata)	9.35e-14	23
neuron	1.03e-13	33
neuronal stem cell	1.03e-13	33
neuroblast	1.03e-13	33
electrically signaling cell	1.03e-13	33
non-terminally differentiated cell	5.92e-12	49
electrically responsive cell	7.86e-11	39
electrically active cell	7.86e-11	39

Uber Anatomy

Ontology term	p-value	n
central nervous system	3.09e-33	73
nervous system	1.19e-31	75
ectoderm-derived structure	3.99e-30	95
ectoderm	3.99e-30	95
presumptive ectoderm	3.99e-30	95
neurectoderm	1.66e-29	64
neural plate	1.66e-29	64
presumptive neural plate	1.66e-29	64
regional part of nervous system	1.76e-27	54
neural tube	1.51e-26	52
neural rod	1.51e-26	52
future spinal cord	1.51e-26	52
neural keel	1.51e-26	52
ecto-epithelium	4.48e-26	73
structure with developmental contribution from neural crest	2.14e-23	92
pre-chordal neural plate	4.00e-23	49
brain	4.82e-23	47
future brain	4.82e-23	47
regional part of brain	1.79e-22	46
anterior neural tube	1.93e-20	40
regional part of forebrain	7.48e-20	39
forebrain	7.48e-20	39
future forebrain	7.48e-20	39
gray matter	1.58e-18	34
brain grey matter	2.52e-15	29
regional part of telencephalon	2.52e-15	29
telencephalon	2.52e-15	29
cerebral cortex	2.26e-11	21
cerebral hemisphere	2.26e-11	21
pallium	2.26e-11	21
multi-cellular organism	1.47e-10	333
tube	4.40e-10	114
anatomical conduit	2.07e-09	122
regional part of cerebral cortex	4.84e-09	17
embryo	4.08e-07	320
tissue	4.55e-07	349

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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