MCL coexpression mm9:2219

Phase1 CAGE Peaks

	Short description
Mm9::chr17:51952537..51952552,-	p15@Satb1
Mm9::chr17:51972332..51972342,+	p@chr17:51972332..51972342 +
Mm9::chr17:51972345..51972362,+	p@chr17:51972345..51972362 +
Mm9::chr18:39679035..39679049,-	p@chr18:39679035..39679049 -

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:0016571	histone methylation	0.0162712978688435
GO:0005720	nuclear heterochromatin	0.0162712978688435
GO:0008213	protein amino acid alkylation	0.0162712978688435
GO:0006479	protein amino acid methylation	0.0162712978688435
GO:0000790	nuclear chromatin	0.0162712978688435
GO:0016570	histone modification	0.0162712978688435
GO:0000792	heterochromatin	0.0162712978688435
GO:0016569	covalent chromatin modification	0.0162712978688435
GO:0043414	biopolymer methylation	0.0162712978688435
GO:0032259	methylation	0.0162712978688435
GO:0044454	nuclear chromosome part	0.0216950638251246
GO:0006730	one-carbon compound metabolic process	0.0216950638251246
GO:0000228	nuclear chromosome	0.0216950638251246
GO:0016568	chromatin modification	0.0426153039422091
GO:0000785	chromatin	0.0465238590916562

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
lymphoid lineage restricted progenitor cell	4.24e-09	12
T cell	1.71e-08	11
pro-T cell	1.71e-08	11
lymphocyte	5.01e-08	13
common lymphoid progenitor	5.01e-08	13
mature alpha-beta T cell	1.24e-07	9
alpha-beta T cell	1.24e-07	9
immature T cell	1.24e-07	9
mature T cell	1.24e-07	9
immature alpha-beta T cell	1.24e-07	9
CD4-positive, alpha-beta T cell	5.51e-07	8

Uber Anatomy

Ontology term	p-value	n
hemopoietic organ	8.37e-14	29
immune organ	8.37e-14	29
thymus	1.51e-12	23
neck	1.51e-12	23
respiratory system epithelium	1.51e-12	23
hemolymphoid system gland	1.51e-12	23
pharyngeal epithelium	1.51e-12	23
thymic region	1.51e-12	23
pharyngeal gland	1.51e-12	23
entire pharyngeal arch endoderm	1.51e-12	23
thymus primordium	1.51e-12	23
early pharyngeal endoderm	1.51e-12	23
organ part	6.27e-12	99
pharynx	1.20e-11	24
gland of gut	1.20e-11	24
upper respiratory tract	1.20e-11	24
chordate pharynx	1.20e-11	24
pharyngeal arch system	1.20e-11	24
pharyngeal region of foregut	1.20e-11	24
mixed endoderm/mesoderm-derived structure	8.49e-11	35
anterior region of body	1.14e-10	43
craniocervical region	1.80e-09	36
segment of respiratory tract	2.18e-09	27
hematopoietic system	2.78e-09	45
blood island	2.78e-09	45
brain grey matter	2.86e-09	29
regional part of telencephalon	2.86e-09	29
telencephalon	2.86e-09	29
occipital lobe	3.19e-09	10
visual cortex	3.19e-09	10
neocortex	3.19e-09	10
hemolymphoid system	5.39e-09	48
immune system	5.39e-09	48
gray matter	5.67e-09	34
anterior neural tube	9.48e-09	40
regional part of forebrain	2.31e-08	39
forebrain	2.31e-08	39
future forebrain	2.31e-08	39
neural tube	4.58e-08	52
neural rod	4.58e-08	52
future spinal cord	4.58e-08	52
neural keel	4.58e-08	52
brain	4.95e-08	47
future brain	4.95e-08	47
cerebral cortex	5.04e-08	21
cerebral hemisphere	5.04e-08	21
pallium	5.04e-08	21
pre-chordal neural plate	8.61e-08	49
regional part of nervous system	9.51e-08	54
regional part of brain	1.33e-07	46
regional part of cerebral cortex	1.88e-07	17
ecto-epithelium	6.15e-07	73
organ segment	8.55e-07	35

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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