MCL coexpression mm9:735

Phase1 CAGE Peaks

	Short description
Mm9::chr15:78004456..78004519,-	p1@Ift27
Mm9::chr15:78004520..78004539,-	p4@Ift27
Mm9::chr1:75139208..75139299,-	p1@1810031K17Rik
Mm9::chr2:164860321..164860359,-	p2@Ncoa5
Mm9::chr5:121902471..121902527,-	p2@Erp29
Mm9::chr6:113327781..113327849,-	p1@Tada3
Mm9::chr6:113327860..113327871,-	p7@Tada3
Mm9::chr7:13623550..13623656,-	p2@Ube2m
Mm9::chr8:73118260..73118271,+	p2@Isyna1
Mm9::chr8:73993125..73993157,+	p2@Dda1

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:0016872	intramolecular lyase activity	0.015118730944159
GO:0004512	inositol-3-phosphate synthase activity	0.015118730944159
GO:0006021	inositol biosynthetic process	0.015118730944159
GO:0015234	thiamin transmembrane transporter activity	0.015118730944159
GO:0015888	thiamin transport	0.015118730944159
GO:0008518	reduced folate carrier activity	0.0188932370255071
GO:0051180	vitamin transport	0.0188932370255071
GO:0008517	folic acid transporter activity	0.0188932370255071
GO:0051183	vitamin transporter activity	0.0274660192782756
GO:0051184	cofactor transporter activity	0.0274660192782756
GO:0005788	endoplasmic reticulum lumen	0.0274660192782756
GO:0006020	inositol metabolic process	0.0283204530089576
GO:0005542	folic acid binding	0.029042640209335

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
neural cell	2.97e-18	43
ectodermal cell	5.78e-18	44
neurectodermal cell	5.78e-18	44
neuron	1.65e-15	33
neuronal stem cell	1.65e-15	33
neuroblast	1.65e-15	33
electrically signaling cell	1.65e-15	33
non-terminally differentiated cell	2.63e-13	49
CNS neuron (sensu Vertebrata)	4.36e-13	23
neuroblast (sensu Vertebrata)	4.36e-13	23
electrically responsive cell	1.80e-10	39
electrically active cell	1.80e-10	39

Uber Anatomy

Ontology term	p-value	n
central nervous system	4.70e-30	73
nervous system	1.79e-28	75
neurectoderm	3.07e-24	64
neural plate	3.07e-24	64
presumptive neural plate	3.07e-24	64
ectoderm-derived structure	2.30e-23	95
ectoderm	2.30e-23	95
presumptive ectoderm	2.30e-23	95
regional part of nervous system	8.24e-22	54
neural tube	7.56e-21	52
neural rod	7.56e-21	52
future spinal cord	7.56e-21	52
neural keel	7.56e-21	52
ecto-epithelium	1.37e-18	73
pre-chordal neural plate	4.42e-18	49
brain	4.80e-18	47
future brain	4.80e-18	47
regional part of brain	8.74e-18	46
structure with developmental contribution from neural crest	1.58e-16	92
anterior neural tube	5.20e-16	40
regional part of forebrain	8.95e-16	39
forebrain	8.95e-16	39
future forebrain	8.95e-16	39
gray matter	1.27e-14	34
brain grey matter	7.42e-12	29
regional part of telencephalon	7.42e-12	29
telencephalon	7.42e-12	29
cerebral cortex	1.83e-08	21
cerebral hemisphere	1.83e-08	21
pallium	1.83e-08	21

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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