MCL coexpression mm9:829

Phase1 CAGE Peaks

	Short description
Mm9::chr16:10526454..10526466,+	p@chr16:10526454..10526466 +
Mm9::chr16:10526557..10526561,+	p@chr16:10526557..10526561 +
Mm9::chr17:34404939..34404950,+	p11@H2-Ab1
Mm9::chr17:34420121..34420133,-	p@chr17:34420121..34420133 -
Mm9::chr18:60971994..60972007,+	p@chr18:60971994..60972007 +
Mm9::chr18:60972021..60972032,+	p@chr18:60972021..60972032 +
Mm9::chr1:87497610..87497645,+	p1@Gm2427 p1@Sp140
Mm9::chr1:89549906..89549917,+	p@chr1:89549906..89549917 +
Mm9::chr4:3502131..3502140,+	p6@Tgs1

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:0005771	multivesicular body	0.0155878198391758
GO:0042605	peptide antigen binding	0.0155878198391758
GO:0042613	MHC class II protein complex	0.0155878198391758
GO:0002495	antigen processing and presentation of peptide antigen via MHC class II	0.0155878198391758
GO:0019886	antigen processing and presentation of exogenous peptide antigen via MHC class II	0.0155878198391758
GO:0002478	antigen processing and presentation of exogenous peptide antigen	0.0155878198391758
GO:0002504	antigen processing and presentation of peptide or polysaccharide antigen via MHC class II	0.0155878198391758
GO:0005769	early endosome	0.0155878198391758
GO:0019884	antigen processing and presentation of exogenous antigen	0.0155878198391758
GO:0005770	late endosome	0.0155878198391758
GO:0042611	MHC protein complex	0.0155878198391758
GO:0048002	antigen processing and presentation of peptide antigen	0.0179898947319687
GO:0019882	antigen processing and presentation	0.0278220089141987
GO:0003823	antigen binding	0.047838884337837
GO:0045786	negative regulation of progression through cell cycle	0.047838884337837
GO:0042277	peptide binding	0.047838884337837
GO:0006260	DNA replication	0.047838884337837
GO:0009897	external side of plasma membrane	0.047838884337837

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><br>uberon_data<br><br>

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Uber Anatomy

Ontology term	p-value	n
hemolymphoid system	4.15e-21	48
immune system	4.15e-21	48
hematopoietic system	6.13e-18	45
blood island	6.13e-18	45
hemopoietic organ	2.69e-14	29
immune organ	2.69e-14	29
mixed endoderm/mesoderm-derived structure	6.04e-12	35
respiratory tract	3.77e-11	41
digestive system	5.75e-11	116
digestive tract	5.75e-11	116
primitive gut	5.75e-11	116
pharynx	6.84e-11	24
upper respiratory tract	6.84e-11	24
chordate pharynx	6.84e-11	24
pharyngeal arch system	6.84e-11	24
pharyngeal region of foregut	6.84e-11	24
respiratory system	1.01e-10	42
endoderm-derived structure	1.43e-10	118
endoderm	1.43e-10	118
presumptive endoderm	1.43e-10	118
thymus	2.55e-10	23
neck	2.55e-10	23
respiratory system epithelium	2.55e-10	23
hemolymphoid system gland	2.55e-10	23
pharyngeal epithelium	2.55e-10	23
thymic region	2.55e-10	23
pharyngeal gland	2.55e-10	23
entire pharyngeal arch endoderm	2.55e-10	23
thymus primordium	2.55e-10	23
early pharyngeal endoderm	2.55e-10	23
subdivision of digestive tract	1.03e-09	114
gland of gut	1.05e-09	24
segment of respiratory tract	3.68e-09	27
foregut	1.98e-08	80
organ segment	3.64e-07	35
lateral plate mesoderm	6.28e-07	87

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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