MCL coexpression mm9:2179

Phase1 CAGE Peaks

	Short description
Mm9::chr16:36828450..36828520,+	p1@Iqcb1
Mm9::chr2:80155618..80155668,+	p2@Dnajc10
Mm9::chr8:42325072..42325121,+	p1@Pcm1
Mm9::chr9:59598758..59598806,+	p2@Myo9a

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:0032391	photoreceptor connecting cilium	0.0245418935033708
GO:0048496	maintenance of organ identity	0.0245418935033708
GO:0019725	cellular homeostasis	0.0293394273960003
GO:0042592	homeostatic process	0.0441173522760644
GO:0045494	photoreceptor cell maintenance	0.0441173522760644
GO:0006306	DNA methylation	0.0441173522760644
GO:0006305	DNA alkylation	0.0441173522760644
GO:0001750	photoreceptor outer segment	0.0441173522760644
GO:0031513	nonmotile primary cilium	0.0441173522760644
GO:0006304	DNA modification	0.0441173522760644

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
neurectoderm	2.63e-11	64
neural plate	2.63e-11	64
presumptive neural plate	2.63e-11	64
ecto-epithelium	3.12e-10	73
pre-chordal neural plate	5.58e-10	49
structure with developmental contribution from neural crest	5.00e-09	92
regional part of nervous system	1.22e-08	54
ectoderm-derived structure	2.17e-08	95
ectoderm	2.17e-08	95
presumptive ectoderm	2.17e-08	95
central nervous system	2.73e-08	73
neural tube	3.30e-08	52
neural rod	3.30e-08	52
future spinal cord	3.30e-08	52
neural keel	3.30e-08	52
nervous system	9.36e-08	75
brain	2.54e-07	47
future brain	2.54e-07	47
anterior neural tube	3.65e-07	40
regional part of brain	7.13e-07	46
regional part of forebrain	8.71e-07	39
forebrain	8.71e-07	39
future forebrain	8.71e-07	39

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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