MCL coexpression mm9:3342

Phase1 CAGE Peaks

	Short description
Mm9::chr2:30122323..30122406,+	p1@Phyhd1
Mm9::chr5:5514877..5514891,-	p2@Cldn12
Mm9::chr5:5514906..5514918,-	p4@Cldn12

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:0051213	dioxygenase activity	0.0295120490852277
GO:0016702	oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen	0.0295120490852277
GO:0016701	oxidoreductase activity, acting on single donors with incorporation of molecular oxygen	0.0295120490852277
GO:0005923	tight junction	0.0295120490852277
GO:0043296	apical junction complex	0.0295120490852277
GO:0016327	apicolateral plasma membrane	0.0295120490852277
GO:0005911	intercellular junction	0.0420906041267709

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	1.18e-11	49
embryonic cell	2.65e-10	70
ectodermal cell	2.01e-09	44
neurectodermal cell	2.01e-09	44
neural cell	3.92e-09	43
electrically responsive cell	6.74e-08	39
electrically active cell	6.74e-08	39

Uber Anatomy

Ontology term	p-value	n
tube	2.49e-18	114
anatomical conduit	2.29e-17	122
ectoderm-derived structure	1.09e-15	95
ectoderm	1.09e-15	95
presumptive ectoderm	1.09e-15	95
nervous system	2.80e-14	75
central nervous system	6.35e-14	73
anatomical cluster	6.46e-12	244
epithelial tube	2.05e-11	47
structure with developmental contribution from neural crest	2.44e-10	92
liver	5.46e-10	22
epithelial sac	5.46e-10	22
digestive gland	5.46e-10	22
epithelium of foregut-midgut junction	5.46e-10	22
anatomical boundary	5.46e-10	22
hepatobiliary system	5.46e-10	22
foregut-midgut junction	5.46e-10	22
hepatic diverticulum	5.46e-10	22
liver primordium	5.46e-10	22
septum transversum	5.46e-10	22
liver bud	5.46e-10	22
ecto-epithelium	6.91e-10	73
neurectoderm	9.96e-10	64
neural plate	9.96e-10	64
presumptive neural plate	9.96e-10	64
brain	8.49e-09	47
future brain	8.49e-09	47
digestive tract diverticulum	9.16e-09	23
sac	9.16e-09	23
exocrine gland	1.01e-08	25
exocrine system	1.01e-08	25
regional part of nervous system	1.28e-08	54
regional part of brain	2.42e-08	46
neural tube	5.27e-08	52
neural rod	5.27e-08	52
future spinal cord	5.27e-08	52
neural keel	5.27e-08	52
mesenchyme	1.43e-07	61
entire embryonic mesenchyme	1.43e-07	61
pre-chordal neural plate	4.63e-07	49
cell layer	6.87e-07	176

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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