MCL coexpression mm9:2596

Phase1 CAGE Peaks

	Short description
Mm9::chr10:85961581..85961603,-	p2@Syn3
Mm9::chr10:85961617..85961654,-	p1@Syn3
Mm9::chr15:90880254..90880298,-	p1@Kif21a

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:0030672	synaptic vesicle membrane	0.0360765078419499
GO:0051649	establishment of cellular localization	0.0360765078419499
GO:0051641	cellular localization	0.0360765078419499
GO:0005871	kinesin complex	0.0360765078419499
GO:0005524	ATP binding	0.0360765078419499
GO:0032559	adenyl ribonucleotide binding	0.0360765078419499
GO:0030554	adenyl nucleotide binding	0.0360765078419499
GO:0044433	cytoplasmic vesicle part	0.0360765078419499
GO:0007269	neurotransmitter secretion	0.0360765078419499
GO:0008021	synaptic vesicle	0.0360765078419499
GO:0012506	vesicle membrane	0.0360765078419499
GO:0045055	regulated secretory pathway	0.0360765078419499
GO:0003777	microtubule motor activity	0.0360765078419499
GO:0032553	ribonucleotide binding	0.0360765078419499
GO:0032555	purine ribonucleotide binding	0.0360765078419499
GO:0017076	purine nucleotide binding	0.0360765078419499
GO:0030136	clathrin-coated vesicle	0.0360765078419499
GO:0007018	microtubule-based movement	0.0360765078419499
GO:0003001	generation of a signal involved in cell-cell signaling	0.0360765078419499
GO:0030135	coated vesicle	0.0360765078419499
GO:0001505	regulation of neurotransmitter levels	0.0360765078419499
GO:0000166	nucleotide binding	0.0360765078419499
GO:0030705	cytoskeleton-dependent intracellular transport	0.0366866860417446
GO:0005875	microtubule associated complex	0.0366866860417446
GO:0006810	transport	0.0439919398657478
GO:0044446	intracellular organelle part	0.0439919398657478
GO:0044422	organelle part	0.0439919398657478
GO:0016043	cellular component organization and biogenesis	0.0439919398657478
GO:0051234	establishment of localization	0.0439919398657478
GO:0045045	secretory pathway	0.0464001961037806
GO:0007017	microtubule-based process	0.0464001961037806
GO:0016023	cytoplasmic membrane-bound vesicle	0.0464001961037806
GO:0051179	localization	0.0464001961037806
GO:0007268	synaptic transmission	0.0464001961037806
GO:0005874	microtubule	0.0464001961037806
GO:0031988	membrane-bound vesicle	0.0464001961037806
GO:0032940	secretion by cell	0.0479228385937083

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	4.91e-17	33
neuronal stem cell	4.91e-17	33
neuroblast	4.91e-17	33
electrically signaling cell	4.91e-17	33
electrically responsive cell	1.57e-11	39
electrically active cell	1.57e-11	39
CNS neuron (sensu Vertebrata)	3.60e-11	23
neuroblast (sensu Vertebrata)	3.60e-11	23
ectodermal cell	4.64e-09	44
neurectodermal cell	4.64e-09	44
neural cell	1.00e-08	43

Uber Anatomy

Ontology term	p-value	n
central nervous system	1.32e-24	73
ectoderm-derived structure	1.31e-23	95
ectoderm	1.31e-23	95
presumptive ectoderm	1.31e-23	95
nervous system	2.46e-23	75
neurectoderm	6.44e-22	64
neural plate	6.44e-22	64
presumptive neural plate	6.44e-22	64
ecto-epithelium	5.83e-21	73
regional part of nervous system	5.01e-19	54
neural tube	8.12e-18	52
neural rod	8.12e-18	52
future spinal cord	8.12e-18	52
neural keel	8.12e-18	52
pre-chordal neural plate	2.78e-16	49
brain	2.59e-15	47
future brain	2.59e-15	47
regional part of brain	9.33e-15	46
anterior neural tube	2.98e-14	40
gray matter	8.87e-14	34
regional part of forebrain	1.37e-13	39
forebrain	1.37e-13	39
future forebrain	1.37e-13	39
brain grey matter	1.65e-11	29
regional part of telencephalon	1.65e-11	29
telencephalon	1.65e-11	29
structure with developmental contribution from neural crest	4.38e-11	92
cerebral cortex	9.23e-08	21
cerebral hemisphere	9.23e-08	21
pallium	9.23e-08	21
cavitated compound organ	4.53e-07	21
occipital lobe	5.36e-07	10
visual cortex	5.36e-07	10
neocortex	5.36e-07	10

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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