MCL coexpression mm9:945

Phase1 CAGE Peaks

	Short description
Mm9::chr13:24467811..24467828,-	p1@ENSMUST00000147704
Mm9::chr13:24467831..24467841,-	p3@ENSMUST00000147704
Mm9::chr13:24467891..24467902,-	p2@ENSMUST00000147704
Mm9::chr13:24467903..24467914,+	p10@Cmah
Mm9::chr5:36896690..36896700,-	p@chr5:36896690..36896700 -
Mm9::chr6:39329973..39329994,+	p@chr6:39329973..39329994 +
Mm9::chr7:17429487..17429492,+	p@chr7:17429487..17429492 +
Mm9::chr8:124999903..124999926,-	p2@Rnf166

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:0030338	CMP-N-acetylneuraminate monooxygenase activity	0.00416358505650466
GO:0016716	oxidoreductase activity, acting on paired donors, with incorporation or reduction of molecular oxygen, another compound as one donor, and incorporation of one atom of oxygen	0.00416358505650466
GO:0046381	CMP-N-acetylneuraminate metabolic process	0.00416358505650466
GO:0006054	N-acetylneuraminate metabolic process	0.00780608038529814
GO:0009225	nucleotide-sugar metabolic process	0.00858527691340211
GO:0016681	oxidoreductase activity, acting on diphenols and related substances as donors, cytochrome as acceptor	0.00858527691340211
GO:0016679	oxidoreductase activity, acting on diphenols and related substances as donors	0.00858527691340211
GO:0008121	ubiquinol-cytochrome-c reductase activity	0.00858527691340211
GO:0051537	2 iron, 2 sulfur cluster binding	0.00971183807795139
GO:0006040	amino sugar metabolic process	0.0149798725366914
GO:0051536	iron-sulfur cluster binding	0.0223541333869878
GO:0051540	metal cluster binding	0.0223541333869878
GO:0015078	hydrogen ion transmembrane transporter activity	0.0427151651692191
GO:0015077	monovalent inorganic cation transmembrane transporter activity	0.0427151651692191
GO:0004497	monooxygenase activity	0.0479560692337963
GO:0016705	oxidoreductase activity, acting on paired donors, with incorporation or reduction of molecular oxygen	0.0479560692337963
GO:0022890	inorganic cation transmembrane transporter activity	0.0479560692337963
GO:0046914	transition metal ion binding	0.0492165645382467

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>disease_data<br>

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Cell Type

Ontology term	p-value	n
T cell	5.68e-09	11
pro-T cell	5.68e-09	11
lymphoid lineage restricted progenitor cell	3.87e-08	12
lymphocyte	1.96e-07	13
common lymphoid progenitor	1.96e-07	13
hematopoietic lineage restricted progenitor cell	7.56e-07	25

Uber Anatomy

Ontology term	p-value	n
thymus	2.05e-20	23
neck	2.05e-20	23
respiratory system epithelium	2.05e-20	23
hemolymphoid system gland	2.05e-20	23
pharyngeal epithelium	2.05e-20	23
thymic region	2.05e-20	23
pharyngeal gland	2.05e-20	23
entire pharyngeal arch endoderm	2.05e-20	23
thymus primordium	2.05e-20	23
early pharyngeal endoderm	2.05e-20	23
pharynx	2.09e-19	24
gland of gut	2.09e-19	24
upper respiratory tract	2.09e-19	24
chordate pharynx	2.09e-19	24
pharyngeal arch system	2.09e-19	24
pharyngeal region of foregut	2.09e-19	24
hemopoietic organ	1.47e-17	29
immune organ	1.47e-17	29
segment of respiratory tract	7.84e-17	27
hemolymphoid system	7.31e-15	48
immune system	7.31e-15	48
hematopoietic system	2.03e-14	45
blood island	2.03e-14	45
respiratory tract	2.13e-14	41
respiratory system	5.99e-14	42
mixed endoderm/mesoderm-derived structure	7.22e-14	35
organ segment	3.86e-12	35
craniocervical region	1.06e-11	36
anterior region of body	3.26e-09	43
lateral plate mesoderm	1.90e-08	87
unilaminar epithelium	9.64e-08	66
mesoderm	5.37e-07	120
mesoderm-derived structure	5.37e-07	120
presumptive mesoderm	5.37e-07	120
endo-epithelium	7.94e-07	69

Disease

Ontology term	p-value	n
musculoskeletal system cancer	1.92e-08	3
muscle cancer	1.92e-08	3

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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