MCL coexpression mm9:2859

Phase1 CAGE Peaks

	Short description
Mm9::chr13:54712670..54712687,-	p3@Cltb
Mm9::chr13:54712693..54712748,-	p1@Cltb
Mm9::chr2:164312019..164312155,+	p1@Dbndd2

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:0030132	clathrin coat of coated pit	0.0146463956248649
GO:0030130	clathrin coat of trans-Golgi network vesicle	0.0146463956248649
GO:0012510	trans-Golgi network transport vesicle membrane	0.0146463956248649
GO:0030660	Golgi-associated vesicle membrane	0.0146463956248649
GO:0030658	transport vesicle membrane	0.0146463956248649
GO:0030140	trans-Golgi network transport vesicle	0.0146463956248649
GO:0030125	clathrin vesicle coat	0.0146463956248649
GO:0030665	clathrin coated vesicle membrane	0.0147864159154189
GO:0030133	transport vesicle	0.0157708802778738
GO:0030120	vesicle coat	0.0183943176075133
GO:0030662	coated vesicle membrane	0.0183943176075133
GO:0005798	Golgi-associated vesicle	0.0183943176075133
GO:0005905	coated pit	0.0187970422604788
GO:0030118	clathrin coat	0.0191419569561835
GO:0030659	cytoplasmic vesicle membrane	0.0199654984529125
GO:0044433	cytoplasmic vesicle part	0.0227589329654743
GO:0030117	membrane coat	0.0227589329654743
GO:0048475	coated membrane	0.0227589329654743
GO:0012506	vesicle membrane	0.0232170922115739
GO:0000139	Golgi membrane	0.0271667427936787
GO:0030136	clathrin-coated vesicle	0.0277441420857255
GO:0030135	coated vesicle	0.0311243611438732
GO:0006461	protein complex assembly	0.0427299765274537
GO:0044431	Golgi apparatus part	0.0432344157632729
GO:0008565	protein transporter activity	0.0449501943481015

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
embryonic cell	2.31e-13	70
non-terminally differentiated cell	2.00e-08	49
migratory neural crest cell	4.92e-08	10
neuron associated cell	4.92e-08	10
glial cell (sensu Vertebrata)	4.92e-08	10
neuron associated cell (sensu Vertebrata)	4.92e-08	10
glial cell	4.92e-08	10
glioblast	4.92e-08	10
glioblast (sensu Vertebrata)	4.92e-08	10
ectodermal cell	2.12e-07	44
neurectodermal cell	2.12e-07	44
neural cell	2.26e-07	43
epithelial cell	5.22e-07	25
oligodendrocyte precursor cell	7.84e-07	8

Uber Anatomy

Ontology term	p-value	n
ectoderm-derived structure	4.26e-17	95
ectoderm	4.26e-17	95
presumptive ectoderm	4.26e-17	95
nervous system	6.66e-16	75
central nervous system	9.29e-15	73
regional part of nervous system	2.84e-14	54
neural tube	4.75e-13	52
neural rod	4.75e-13	52
future spinal cord	4.75e-13	52
neural keel	4.75e-13	52
ecto-epithelium	8.81e-12	73
neurectoderm	2.80e-11	64
neural plate	2.80e-11	64
presumptive neural plate	2.80e-11	64
brain	9.33e-11	47
future brain	9.33e-11	47
regional part of brain	1.89e-10	46
organ system subdivision	1.36e-09	194
anatomical cluster	1.68e-09	244
gray matter	6.31e-09	34
structure with developmental contribution from neural crest	1.55e-08	92
anterior neural tube	1.44e-07	40
anatomical conduit	2.32e-07	122
posterior neural tube	2.43e-07	12
chordal neural plate	2.43e-07	12
regional part of forebrain	2.80e-07	39
forebrain	2.80e-07	39
future forebrain	2.80e-07	39
pre-chordal neural plate	2.94e-07	49
brain grey matter	6.21e-07	29
regional part of telencephalon	6.21e-07	29
telencephalon	6.21e-07	29

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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