MCL coexpression mm9:1004

Phase1 CAGE Peaks

	Short description
Mm9::chr9:98855201..98855222,-	p@chr9:98855201..98855222 -
Mm9::chr9:98855692..98855710,+	p2@Foxl2
Mm9::chr9:98855721..98855732,-	p2@Foxl2os
Mm9::chr9:98855759..98855767,-	p3@Foxl2os
Mm9::chr9:98855847..98855866,+	p3@Foxl2
Mm9::chr9:98855868..98855895,+	p1@Foxl2
Mm9::chr9:98855944..98855971,+	p4@Foxl2
Mm9::chr9:98857712..98857715,-	p@chr9:98857712..98857715 -

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:0019101	female somatic sex determination	0.00169835095600723
GO:0030237	female sex determination	0.00169835095600723
GO:0060014	granulosa cell differentiation	0.00169835095600723
GO:0018993	somatic sex determination	0.00254752643401085
GO:0048048	embryonic eye morphogenesis	0.00611406344162603
GO:0001541	ovarian follicle development	0.0134654968654859
GO:0048562	embryonic organ morphogenesis	0.0134654968654859
GO:0007530	sex determination	0.0134654968654859
GO:0022601	menstrual cycle phase	0.0134654968654859
GO:0022602	menstrual cycle process	0.0134654968654859
GO:0008585	female gonad development	0.0134654968654859
GO:0046545	development of primary female sexual characteristics	0.0134654968654859
GO:0046660	female sex differentiation	0.0134654968654859
GO:0048568	embryonic organ development	0.0134654968654859
GO:0042698	menstrual cycle	0.0135868076480578
GO:0048592	eye morphogenesis	0.0136929545828083
GO:0008406	gonad development	0.0150021001113972
GO:0048608	reproductive structure development	0.0150021001113972
GO:0045137	development of primary sexual characteristics	0.0155533192813294
GO:0048609	reproductive process in a multicellular organism	0.0169063117893447
GO:0032504	multicellular organism reproduction	0.0169063117893447
GO:0007548	sex differentiation	0.0169063117893447
GO:0003006	reproductive developmental process	0.0190510672456463
GO:0001654	eye development	0.022078562428094
GO:0006917	induction of apoptosis	0.0252793007682615
GO:0012502	induction of programmed cell death	0.0252793007682615
GO:0043065	positive regulation of apoptosis	0.0300244186865564
GO:0043068	positive regulation of programmed cell death	0.0300244186865564
GO:0007423	sensory organ development	0.0326786149466219
GO:0045944	positive regulation of transcription from RNA polymerase II promoter	0.0327994028378897
GO:0048598	embryonic morphogenesis	0.0327994028378897
GO:0022414	reproductive process	0.0327994028378897
GO:0045893	positive regulation of transcription, DNA-dependent	0.0364373477834279
GO:0045941	positive regulation of transcription	0.0417794335177779
GO:0045935	positive regulation of nucleobase, nucleoside, nucleotide and nucleic acid metabolic process	0.0417794335177779
GO:0031325	positive regulation of cellular metabolic process	0.0484030022462061
GO:0009893	positive regulation of metabolic process	0.0484030022462061
GO:0042981	regulation of apoptosis	0.0484030022462061
GO:0043067	regulation of programmed cell death	0.0484030022462061
GO:0006357	regulation of transcription from RNA polymerase II promoter	0.0484030022462061

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
pituitary gland	6.12e-13	8
gland of diencephalon	6.12e-13	8
neuroendocrine gland	6.12e-13	8
pre-chordal neural plate	7.27e-13	49
diencephalon	2.33e-12	10
future diencephalon	2.33e-12	10
female reproductive system	1.54e-11	9
neurectoderm	6.35e-11	64
neural plate	6.35e-11	64
presumptive neural plate	6.35e-11	64
female reproductive organ	5.06e-10	8
female organism	4.40e-09	11
reproductive structure	8.80e-09	26
reproductive system	8.80e-09	26
ecto-epithelium	1.16e-08	73
eye	2.00e-08	9
camera-type eye	2.00e-08	9
simple eye	2.00e-08	9
immature eye	2.00e-08	9
ocular region	2.00e-08	9
visual system	2.00e-08	9
face	2.00e-08	9
optic cup	2.00e-08	9
optic vesicle	2.00e-08	9
eye primordium	2.00e-08	9
reproductive organ	3.45e-08	24
regional part of forebrain	1.33e-07	39
forebrain	1.33e-07	39
future forebrain	1.33e-07	39
regional part of brain	1.81e-07	46
anterior neural tube	2.66e-07	40
brain	3.31e-07	47
future brain	3.31e-07	47
neural tube	8.85e-07	52
neural rod	8.85e-07	52
future spinal cord	8.85e-07	52
neural keel	8.85e-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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