MCL coexpression mm9:1201

Phase1 CAGE Peaks

	Short description
Mm9::chr5:106886962..106886973,-	p3@Barhl2
Mm9::chr5:106887428..106887437,-	p4@Barhl2
Mm9::chr5:106887474..106887489,-	p1@Barhl2
Mm9::chr5:106887496..106887515,-	p2@Barhl2
Mm9::chr5:28492230..28492257,+	p1@En2
Mm9::chr5:28536710..28536719,-	p11@Cnpy1
Mm9::chr7:133415927..133415938,+	p9@Sbk1

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:0048666	neuron development	0.0288738566240418
GO:0030182	neuron differentiation	0.0288738566240418
GO:0048699	generation of neurons	0.0288738566240418
GO:0022008	neurogenesis	0.0288738566240418
GO:0043565	sequence-specific DNA binding	0.0343317006776549
GO:0030901	midbrain development	0.0343317006776549
GO:0030516	regulation of axon extension	0.0374466075322434
GO:0007399	nervous system development	0.0449113075147967
GO:0048675	axon extension	0.0449113075147967
GO:0001709	cell fate determination	0.0449113075147967

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)	3.50e-23	23
neuroblast (sensu Vertebrata)	3.50e-23	23
neural cell	2.75e-14	43
neuron	4.04e-14	33
neuronal stem cell	4.04e-14	33
neuroblast	4.04e-14	33
electrically signaling cell	4.04e-14	33
ectodermal cell	8.66e-14	44
neurectodermal cell	8.66e-14	44
non-terminally differentiated cell	1.29e-11	49
electrically responsive cell	5.73e-11	39
electrically active cell	5.73e-11	39

Uber Anatomy

Ontology term	p-value	n
ectoderm-derived structure	3.45e-15	95
ectoderm	3.45e-15	95
presumptive ectoderm	3.45e-15	95
neurectoderm	1.11e-14	64
neural plate	1.11e-14	64
presumptive neural plate	1.11e-14	64
central nervous system	4.28e-13	73
nervous system	1.75e-12	75
ecto-epithelium	1.08e-11	73
regional part of nervous system	3.90e-11	54
pre-chordal neural plate	1.34e-10	49
gray matter	7.56e-10	34
neural tube	1.08e-09	52
neural rod	1.08e-09	52
future spinal cord	1.08e-09	52
neural keel	1.08e-09	52
eye	4.10e-09	9
camera-type eye	4.10e-09	9
simple eye	4.10e-09	9
immature eye	4.10e-09	9
ocular region	4.10e-09	9
visual system	4.10e-09	9
face	4.10e-09	9
optic cup	4.10e-09	9
optic vesicle	4.10e-09	9
eye primordium	4.10e-09	9
basal ganglion	1.09e-08	8
nuclear complex of neuraxis	1.09e-08	8
aggregate regional part of brain	1.09e-08	8
collection of basal ganglia	1.09e-08	8
cerebral subcortex	1.09e-08	8
structure with developmental contribution from neural crest	1.98e-07	92
regional part of spinal cord	2.72e-07	5
gray matter of spinal cord	2.72e-07	5
brain	3.50e-07	47
future brain	3.50e-07	47
subdivision of head	3.98e-07	11

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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