MCL coexpression mm9:830

Phase1 CAGE Peaks

	Short description
Mm9::chr16:10526522..10526533,+	p@chr16:10526522..10526533 +
Mm9::chr17:34400169..34400201,+	p1@H2-Ab1
Mm9::chr17:34401792..34401805,+	p@chr17:34401792..34401805 +
Mm9::chr17:34404310..34404328,+	p4@H2-Ab1
Mm9::chr17:34406063..34406072,+	p@chr17:34406063..34406072 +
Mm9::chr17:34424715..34424775,-	p1@H2-Aa
Mm9::chr18:60963511..60963522,+	p2@Cd74
Mm9::chr18:60967650..60967694,+	p@chr18:60967650..60967694 +
Mm9::chr18:60971536..60971571,-	p@chr18:60971536..60971571 -

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:0002495	antigen processing and presentation of peptide antigen via MHC class II	2.9402805329924e-08
GO:0019886	antigen processing and presentation of exogenous peptide antigen via MHC class II	2.9402805329924e-08
GO:0002478	antigen processing and presentation of exogenous peptide antigen	2.9402805329924e-08
GO:0002504	antigen processing and presentation of peptide or polysaccharide antigen via MHC class II	2.9402805329924e-08
GO:0019884	antigen processing and presentation of exogenous antigen	4.29906032935359e-08
GO:0048002	antigen processing and presentation of peptide antigen	1.21050145919687e-07
GO:0019882	antigen processing and presentation	5.07342523339865e-07
GO:0009897	external side of plasma membrane	6.22101460138392e-06
GO:0005771	multivesicular body	8.8585079378312e-06
GO:0042605	peptide antigen binding	1.05010597005964e-05
GO:0042613	MHC class II protein complex	1.05010597005964e-05
GO:0009986	cell surface	1.05010597005964e-05
GO:0045582	positive regulation of T cell differentiation	1.12422584331825e-05
GO:0045621	positive regulation of lymphocyte differentiation	1.66060611691512e-05
GO:0045580	regulation of T cell differentiation	2.00734155611001e-05
GO:0045619	regulation of lymphocyte differentiation	3.50008764403667e-05
GO:0005770	late endosome	4.31568247255248e-05
GO:0042611	MHC protein complex	4.31568247255248e-05
GO:0050870	positive regulation of T cell activation	0.000105122309886019
GO:0006955	immune response	0.000109084407774018
GO:0051251	positive regulation of lymphocyte activation	0.000183866701231306
GO:0030217	T cell differentiation	0.000183866701231306
GO:0050863	regulation of T cell activation	0.000187679693515391
GO:0002376	immune system process	0.000300639969246166
GO:0051249	regulation of lymphocyte activation	0.000300639969246166
GO:0050865	regulation of cell activation	0.000310449579595852
GO:0030098	lymphocyte differentiation	0.000342307974365833
GO:0003823	antigen binding	0.000489796968198964
GO:0042110	T cell activation	0.000525058165040789
GO:0002521	leukocyte differentiation	0.000588094545683921
GO:0042277	peptide binding	0.00059637262044293
GO:0005768	endosome	0.000930175800966296
GO:0005764	lysosome	0.000930175800966296
GO:0000323	lytic vacuole	0.000930175800966296
GO:0046649	lymphocyte activation	0.00106393407006628
GO:0005773	vacuole	0.00106393407006628
GO:0045581	negative regulation of T cell differentiation	0.00106393407006628
GO:0042289	MHC class II protein binding	0.00106393407006628
GO:0045321	leukocyte activation	0.00118324600739464
GO:0030097	hemopoiesis	0.00118324600739464
GO:0001775	cell activation	0.00130294059120673
GO:0048534	hemopoietic or lymphoid organ development	0.00140141979117727
GO:0045620	negative regulation of lymphocyte differentiation	0.00141025393779206
GO:0044459	plasma membrane part	0.00143080160803316
GO:0002520	immune system development	0.00150620481630705
GO:0051239	regulation of multicellular organismal process	0.00183547200533383
GO:0005886	plasma membrane	0.00288702999351992
GO:0045059	positive thymic T cell selection	0.00288702999351992
GO:0043368	positive T cell selection	0.00288702999351992
GO:0043383	negative T cell selection	0.00316989844716695
GO:0045060	negative thymic T cell selection	0.00316989844716695
GO:0042287	MHC protein binding	0.00388574769503132
GO:0051085	chaperone cofactor-dependent protein folding	0.00457441666176633
GO:0045061	thymic T cell selection	0.00505036483165125
GO:0006458	'de novo' protein folding	0.00505036483165125
GO:0051084	'de novo' posttranslational protein folding	0.00505036483165125
GO:0005794	Golgi apparatus	0.00579140002742289
GO:0045058	T cell selection	0.00592014396564938
GO:0050868	negative regulation of T cell activation	0.00616180615516501
GO:0005769	early endosome	0.00774007390611586
GO:0051250	negative regulation of lymphocyte activation	0.00814084023129064
GO:0033077	T cell differentiation in the thymus	0.00814084023129064
GO:0044444	cytoplasmic part	0.00917317022458876
GO:0016064	immunoglobulin mediated immune response	0.0219973520218007
GO:0019724	B cell mediated immunity	0.0219973520218007
GO:0002460	adaptive immune response based on somatic recombination of immune receptors built from immunoglobulin superfamily domains	0.0267246294768124
GO:0002250	adaptive immune response	0.0267246294768124
GO:0048513	organ development	0.0268203057382782
GO:0002449	lymphocyte mediated immunity	0.0268203057382782
GO:0002443	leukocyte mediated immunity	0.0284377538866641
GO:0005515	protein binding	0.0305348782957564
GO:0006461	protein complex assembly	0.0347137540222794
GO:0043234	protein complex	0.0347137540222794
GO:0006457	protein folding	0.0352639211717114
GO:0002252	immune effector process	0.0361220354840267
GO:0048731	system development	0.0365256375817397
GO:0048869	cellular developmental process	0.0374692217593035
GO:0030154	cell differentiation	0.0374692217593035
GO:0005737	cytoplasm	0.0384030814579312
GO:0016021	integral to membrane	0.0454274553912678
GO:0031224	intrinsic to membrane	0.0454274553912678
GO:0048856	anatomical structure development	0.0455408651468514
GO:0032991	macromolecular complex	0.0477137550182854

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
megakaryocyte progenitor cell	2.77e-07	6
megakaryocyte	2.77e-07	6

Uber Anatomy

Ontology term	p-value	n
hemolymphoid system	4.73e-14	48
immune system	4.73e-14	48
endoderm-derived structure	1.04e-13	118
endoderm	1.04e-13	118
presumptive endoderm	1.04e-13	118
digestive system	1.27e-13	116
digestive tract	1.27e-13	116
primitive gut	1.27e-13	116
subdivision of digestive tract	1.58e-12	114
hematopoietic system	5.88e-12	45
blood island	5.88e-12	45
adult organism	2.50e-11	51
gastrointestinal system	1.66e-10	47
intestine	4.77e-10	31
organ component layer	6.24e-10	24
mixed endoderm/mesoderm-derived structure	2.87e-08	35
mucosa	3.08e-08	15
hemopoietic organ	6.78e-08	29
immune organ	6.78e-08	29
respiratory system	2.39e-07	42
respiratory tract	6.75e-07	41
intestinal mucosa	6.85e-07	13
anatomical wall	6.85e-07	13
wall of intestine	6.85e-07	13
gastrointestinal system mucosa	6.85e-07	13

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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