MCL coexpression mm9:438

Phase1 CAGE Peaks

	Short description
Mm9::chr10:77867856..77867866,-	p@chr10:77867856..77867866 -
Mm9::chr11:6372235..6372242,-	p1@ENSMUST00000175144
Mm9::chr12:110796949..110796955,+	p@chr12:110796949..110796955 +
Mm9::chr12:47797986..47798011,-	p@chr12:47797986..47798011 -
Mm9::chr18:57632117..57632134,+	p@chr18:57632117..57632134 +
Mm9::chr19:5797288..5797301,-	p4@ENSMUST00000173314
Mm9::chr1:66486342..66486351,+	p@chr1:66486342..66486351 +
Mm9::chr1:66743268..66743289,+	p@chr1:66743268..66743289 +
Mm9::chr2:102621960..102621969,+	p@chr2:102621960..102621969 +
Mm9::chr3:126639582..126639596,-	p@chr3:126639582..126639596 -
Mm9::chr5:31441248..31441260,-	p1@Ucn
Mm9::chr5:89666281..89666294,+	p@chr5:89666281..89666294 +
Mm9::chr6:30755427..30755442,+	p@chr6:30755427..30755442 +
Mm9::chr7:6659121..6659133,-	p@chr7:6659121..6659133 -
Mm9::chr7:67121440..67121451,-	p@chr7:67121440..67121451 -
Mm9::chr9:67832482..67832485,+	p@chr9:67832482..67832485 +
Mm9::chrX:147089410..147089455,-	p@chrX:147089410..147089455 -

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:0030688	nucleolar preribosome, small subunit precursor	0.015337422852538
GO:0030685	nucleolar preribosome	0.015337422852538
GO:0030684	preribosome	0.015337422852538
GO:0030308	negative regulation of cell growth	0.0498056716510665

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)	1.82e-33	23
neuroblast (sensu Vertebrata)	1.82e-33	23
neuron	1.83e-22	33
neuronal stem cell	1.83e-22	33
neuroblast	1.83e-22	33
electrically signaling cell	1.83e-22	33
electrically responsive cell	1.45e-18	39
electrically active cell	1.45e-18	39
neural cell	1.43e-16	43
ectodermal cell	3.96e-16	44
neurectodermal cell	3.96e-16	44
non-terminally differentiated cell	3.46e-14	49
raphe nuclei neuron	1.25e-12	3
neuron of the ventral spinal cord	4.90e-12	3
embryonic cell	4.62e-09	70

Uber Anatomy

Ontology term	p-value	n
regional part of nervous system	9.22e-29	54
central nervous system	9.92e-25	73
nervous system	5.76e-24	75
neural tube	7.70e-24	52
neural rod	7.70e-24	52
future spinal cord	7.70e-24	52
neural keel	7.70e-24	52
neurectoderm	1.08e-18	64
neural plate	1.08e-18	64
presumptive neural plate	1.08e-18	64
gray matter	3.28e-18	34
ectoderm-derived structure	4.32e-18	95
ectoderm	4.32e-18	95
presumptive ectoderm	4.32e-18	95
ecto-epithelium	6.13e-16	73
spinal cord	1.80e-15	6
dorsal region element	1.80e-15	6
dorsum	1.80e-15	6
regional part of brain	2.47e-14	46
posterior neural tube	4.95e-14	12
chordal neural plate	4.95e-14	12
brain	5.73e-14	47
future brain	5.73e-14	47
raphe nuclei	1.25e-12	3
reticular formation	1.25e-12	3
anterior neural tube	1.65e-12	40
regional part of spinal cord	2.22e-12	5
gray matter of spinal cord	2.22e-12	5
ventral horn of spinal cord	4.90e-12	3
structure with developmental contribution from neural crest	6.93e-12	92
regional part of forebrain	6.59e-11	39
forebrain	6.59e-11	39
future forebrain	6.59e-11	39
brain grey matter	1.48e-10	29
regional part of telencephalon	1.48e-10	29
telencephalon	1.48e-10	29
pre-chordal neural plate	8.97e-10	49
tube	7.16e-09	114
regional part of midbrain	9.80e-09	4
midbrain	9.80e-09	4
presumptive midbrain	9.80e-09	4
midbrain neural tube	9.80e-09	4
anatomical conduit	4.82e-08	122
basal ganglion	1.04e-07	8
nuclear complex of neuraxis	1.04e-07	8
aggregate regional part of brain	1.04e-07	8
collection of basal ganglia	1.04e-07	8
cerebral subcortex	1.04e-07	8
medulla oblongata	1.17e-07	2
brainstem	1.17e-07	2
myelencephalon	1.17e-07	2
future myelencephalon	1.17e-07	2
organ system subdivision	9.88e-07	194

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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