MCL coexpression mm9:488

Phase1 CAGE Peaks

	Short description
Mm9::chr11:28630472..28630482,+	p@chr11:28630472..28630482 +
Mm9::chr14:61104032..61104041,+	p@chr14:61104032..61104041 +
Mm9::chr1:24237646..24237669,+	p@chr1:24237646..24237669 +
Mm9::chr3:128897563..128897574,+	p@chr3:128897563..128897574 +
Mm9::chr5:35735487..35735491,+	p@chr5:35735487..35735491 +
Mm9::chr6:70906450..70906454,+	p1@Foxi3
Mm9::chr6:83660844..83660859,-	p1@Vax2os1
Mm9::chr6:97891135..97891147,+	p@chr6:97891135..97891147 +
Mm9::chr6:97891166..97891186,+	p@chr6:97891166..97891186 +
Mm9::chr6:97891189..97891203,+	p@chr6:97891189..97891203 +
Mm9::chr6:97891221..97891223,+	p@chr6:97891221..97891223 +
Mm9::chr7:94641837..94641850,-	p@chr7:94641837..94641850 -
Mm9::chr8:122025598..122025626,-	p1@Slc38a8
Mm9::chr8:122025661..122025666,-	p2@Slc38a8
Mm9::chr9:57976869..57976875,+	p21@Stra6

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:0004503	monophenol monooxygenase activity	0.0101895474352689
GO:0016716	oxidoreductase activity, acting on paired donors, with incorporation or reduction of molecular oxygen, another compound as one donor, and incorporation of one atom of oxygen	0.0101895474352689
GO:0006583	melanin biosynthetic process from tyrosine	0.0203701635264731
GO:0006582	melanin metabolic process	0.0203701635264731
GO:0042438	melanin biosynthetic process	0.0203701635264731
GO:0006570	tyrosine metabolic process	0.022064049524218
GO:0009072	aromatic amino acid family metabolic process	0.0330725015878092
GO:0046148	pigment biosynthetic process	0.0330725015878092
GO:0042440	pigment metabolic process	0.0350415925669434
GO:0030141	secretory granule	0.0386439563197676
GO:0019748	secondary metabolic process	0.0397424554979222
GO:0005507	copper ion binding	0.0457224475371469
GO:0046982	protein heterodimerization activity	0.0468793886931207

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><br>uberon_data<br><br>

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Uber Anatomy

Ontology term	p-value	n
eye	4.03e-52	9
camera-type eye	4.03e-52	9
simple eye	4.03e-52	9
immature eye	4.03e-52	9
ocular region	4.03e-52	9
visual system	4.03e-52	9
face	4.03e-52	9
optic cup	4.03e-52	9
optic vesicle	4.03e-52	9
eye primordium	4.03e-52	9
subdivision of head	1.38e-42	11
sense organ	5.22e-39	12
sensory system	5.22e-39	12
entire sense organ system	5.22e-39	12
head	5.58e-36	13
ectodermal placode	5.58e-36	13
craniocervical region	1.14e-12	36
pre-chordal neural plate	1.30e-11	49
anterior region of body	1.67e-10	43
neurectoderm	1.06e-08	64
neural plate	1.06e-08	64
presumptive neural plate	1.06e-08	64
ecto-epithelium	1.60e-07	73

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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