MCL coexpression mm9:733

Phase1 CAGE Peaks

	Short description
Mm9::chr15:26291955..26291956,+	p@chr15:26291955..26291956 +
Mm9::chr4:110256532..110256536,+	p@chr4:110256532..110256536 +
Mm9::chr4:110262019..110262022,+	p@chr4:110262019..110262022 +
Mm9::chr4:110325225..110325231,+	p@chr4:110325225..110325231 +
Mm9::chr4:151401911..151401934,+	p@chr4:151401911..151401934 +
Mm9::chr5:125342568..125342602,+	p2@Zfp664
Mm9::chr5:92444356..92444360,-	p@chr5:92444356..92444360 -
Mm9::chr5:92471656..92471727,-	p1@Cdkl2
Mm9::chr6:53018556..53018650,-	p1@Jazf1
Mm9::chr7:97129757..97129776,+	p@chr7:97129757..97129776 +

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:0035098	ESC/E(Z) complex	0.0370123163137112
GO:0006349	genetic imprinting	0.0370123163137112
GO:0035097	histone methyltransferase complex	0.0370123163137112
GO:0005634	nucleus	0.0370123163137112
GO:0017053	transcriptional repressor complex	0.0370123163137112
GO:0031519	PcG protein complex	0.0370123163137112
GO:0043283	biopolymer metabolic process	0.0370123163137112
GO:0001739	sex chromatin	0.0370123163137112
GO:0000803	sex chromosome	0.0370123163137112
GO:0045120	pronucleus	0.0370123163137112
GO:0016571	histone methylation	0.0370123163137112
GO:0044451	nucleoplasm part	0.0383916747404711
GO:0010468	regulation of gene expression	0.0383916747404711
GO:0005720	nuclear heterochromatin	0.0383916747404711
GO:0005654	nucleoplasm	0.0383916747404711
GO:0042054	histone methyltransferase activity	0.0383916747404711
GO:0008213	protein amino acid alkylation	0.0383916747404711
GO:0006479	protein amino acid methylation	0.0383916747404711
GO:0004693	cyclin-dependent protein kinase activity	0.0383916747404711
GO:0000790	nuclear chromatin	0.0383916747404711
GO:0008276	protein methyltransferase activity	0.0383916747404711
GO:0031981	nuclear lumen	0.0383916747404711
GO:0043170	macromolecule metabolic process	0.0383916747404711
GO:0016570	histone modification	0.0383916747404711
GO:0000792	heterochromatin	0.0385558823317547
GO:0016569	covalent chromatin modification	0.0385558823317547
GO:0031974	membrane-enclosed lumen	0.038814610994547
GO:0043233	organelle lumen	0.038814610994547
GO:0043414	biopolymer methylation	0.038814610994547
GO:0040029	regulation of gene expression, epigenetic	0.038814610994547
GO:0032259	methylation	0.0393031576574954
GO:0010467	gene expression	0.0423687115763379
GO:0003714	transcription corepressor activity	0.0449295376650605
GO:0044238	primary metabolic process	0.0449295376650605
GO:0044237	cellular metabolic process	0.0449295376650605
GO:0043231	intracellular membrane-bound organelle	0.0449295376650605
GO:0043227	membrane-bound organelle	0.0449295376650605
GO:0006139	nucleobase, nucleoside, nucleotide and nucleic acid metabolic process	0.0464302673569337
GO:0044454	nuclear chromosome part	0.0464302673569337
GO:0044428	nuclear part	0.0491307095045673

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
neuron	5.31e-09	33
neuronal stem cell	5.31e-09	33
neuroblast	5.31e-09	33
electrically signaling cell	5.31e-09	33
CNS neuron (sensu Vertebrata)	6.73e-09	23
neuroblast (sensu Vertebrata)	6.73e-09	23

Uber Anatomy

Ontology term	p-value	n
neurectoderm	5.96e-23	64
neural plate	5.96e-23	64
presumptive neural plate	5.96e-23	64
central nervous system	8.53e-22	73
regional part of nervous system	3.31e-21	54
ecto-epithelium	8.95e-21	73
ectoderm-derived structure	1.10e-20	95
ectoderm	1.10e-20	95
presumptive ectoderm	1.10e-20	95
nervous system	3.93e-20	75
neural tube	5.77e-20	52
neural rod	5.77e-20	52
future spinal cord	5.77e-20	52
neural keel	5.77e-20	52
pre-chordal neural plate	1.10e-18	49
brain	2.00e-17	47
future brain	2.00e-17	47
structure with developmental contribution from neural crest	6.62e-17	92
regional part of brain	8.40e-17	46
anterior neural tube	3.92e-16	40
regional part of forebrain	1.46e-15	39
forebrain	1.46e-15	39
future forebrain	1.46e-15	39
gray matter	1.69e-14	34
brain grey matter	4.85e-12	29
regional part of telencephalon	4.85e-12	29
telencephalon	4.85e-12	29
cerebral cortex	6.80e-09	21
cerebral hemisphere	6.80e-09	21
pallium	6.80e-09	21
regional part of cerebral cortex	4.34e-08	17
occipital lobe	6.41e-08	10
visual cortex	6.41e-08	10
neocortex	6.41e-08	10
tube	2.09e-07	114
anatomical conduit	3.41e-07	122
multi-cellular organism	4.03e-07	333

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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