MCL coexpression mm9:2878

Phase1 CAGE Peaks

	Short description
Mm9::chr13:91600731..91600748,+	p2@Ssbp2
Mm9::chr13:91600750..91600793,+	p1@Ssbp2
Mm9::chr4:102887944..102887994,-	p3@Slc35d1

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:0003697	single-stranded DNA binding	0.0361584397085411
GO:0043566	structure-specific DNA binding	0.0433901276502493

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
CNS neuron (sensu Vertebrata)	7.71e-07	23
neuroblast (sensu Vertebrata)	7.71e-07	23

Uber Anatomy

Ontology term	p-value	n
pre-chordal neural plate	2.40e-18	49
neurectoderm	2.49e-18	64
neural plate	2.49e-18	64
presumptive neural plate	2.49e-18	64
ecto-epithelium	4.03e-17	73
neural tube	9.01e-16	52
neural rod	9.01e-16	52
future spinal cord	9.01e-16	52
neural keel	9.01e-16	52
anterior neural tube	3.25e-15	40
brain	7.71e-15	47
future brain	7.71e-15	47
regional part of nervous system	7.78e-15	54
regional part of forebrain	1.23e-14	39
forebrain	1.23e-14	39
future forebrain	1.23e-14	39
regional part of brain	2.52e-14	46
central nervous system	2.24e-13	73
ectoderm-derived structure	4.87e-13	95
ectoderm	4.87e-13	95
presumptive ectoderm	4.87e-13	95
structure with developmental contribution from neural crest	1.62e-12	92
nervous system	2.90e-12	75
gray matter	2.90e-11	34
brain grey matter	5.51e-10	29
regional part of telencephalon	5.51e-10	29
telencephalon	5.51e-10	29
cerebral cortex	4.05e-08	21
cerebral hemisphere	4.05e-08	21
pallium	4.05e-08	21
anterior region of body	1.97e-07	43

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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