MCL coexpression mm9:2728

Phase1 CAGE Peaks

	Short description
Mm9::chr11:83993113..83993159,+	p2@Acaca p2@LOC100503180 p2@LOC100503206
Mm9::chr3:96531454..96531495,+	p3@Rnf115
Mm9::chrX:153930212..153930272,-	p4@Gm14680 p4@Sms

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:0003989	acetyl-CoA carboxylase activity	0.00284884676491536
GO:0004075	biotin carboxylase activity	0.00284884676491536
GO:0009374	biotin binding	0.00284884676491536
GO:0016421	CoA carboxylase activity	0.00299128910316113
GO:0016885	ligase activity, forming carbon-carbon bonds	0.00299128910316113
GO:0006633	fatty acid biosynthetic process	0.0194967950473895
GO:0046394	carboxylic acid biosynthetic process	0.0194967950473895
GO:0016053	organic acid biosynthetic process	0.0194967950473895
GO:0019842	vitamin binding	0.0249274091930094
GO:0030145	manganese ion binding	0.0275625924505561
GO:0016879	ligase activity, forming carbon-nitrogen bonds	0.0284884676491536
GO:0006631	fatty acid metabolic process	0.0284884676491536
GO:0032787	monocarboxylic acid metabolic process	0.035007943899633
GO:0008610	lipid biosynthetic process	0.0360175626707156
GO:0016874	ligase activity	0.046008875253383

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)	1.39e-12	23
neuroblast (sensu Vertebrata)	1.39e-12	23
neuron	4.15e-07	33
neuronal stem cell	4.15e-07	33
neuroblast	4.15e-07	33
electrically signaling cell	4.15e-07	33

Uber Anatomy

Ontology term	p-value	n
ecto-epithelium	2.00e-15	73
neurectoderm	5.24e-15	64
neural plate	5.24e-15	64
presumptive neural plate	5.24e-15	64
regional part of nervous system	1.20e-14	54
gray matter	2.67e-14	34
neural tube	7.21e-14	52
neural rod	7.21e-14	52
future spinal cord	7.21e-14	52
neural keel	7.21e-14	52
pre-chordal neural plate	1.37e-13	49
ectoderm-derived structure	7.60e-12	95
ectoderm	7.60e-12	95
presumptive ectoderm	7.60e-12	95
anterior neural tube	1.89e-11	40
brain grey matter	2.03e-11	29
regional part of telencephalon	2.03e-11	29
telencephalon	2.03e-11	29
brain	2.38e-11	47
future brain	2.38e-11	47
regional part of forebrain	5.56e-11	39
forebrain	5.56e-11	39
future forebrain	5.56e-11	39
regional part of brain	6.33e-11	46
central nervous system	1.02e-10	73
nervous system	4.06e-10	75
cerebral cortex	1.36e-08	21
cerebral hemisphere	1.36e-08	21
pallium	1.36e-08	21
anterior region of body	2.08e-07	43
structure with developmental contribution from neural crest	3.26e-07	92

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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