MCL coexpression mm9:909

Phase1 CAGE Peaks

	Short description
Mm9::chr11:62272200..62272221,-	p11@Ncor1
Mm9::chr16:4679660..4679699,-	p2@Coro7
Mm9::chr2:155805181..155805202,-	p@chr2:155805181..155805202 -
Mm9::chr7:134281321..134281341,-	p1@Spn
Mm9::chr7:150191554..150191578,+	p2@Tspan32
Mm9::chr7:82731110..82731121,+	p@chr7:82731110..82731121 +
Mm9::chr7:82731147..82731158,+	p@chr7:82731147..82731158 +
Mm9::chr8:114060166..114060201,+	p2@Znrf1

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:0001808	negative regulation of type IV hypersensitivity	0.0112754494454306
GO:0002710	negative regulation of T cell mediated immunity	0.0112754494454306
GO:0001807	regulation of type IV hypersensitivity	0.0112754494454306
GO:0001806	type IV hypersensitivity	0.0112754494454306
GO:0008367	bacterial binding	0.0112754494454306
GO:0002704	negative regulation of leukocyte mediated immunity	0.0112754494454306
GO:0002865	negative regulation of acute inflammatory response to antigenic stimulus	0.0112754494454306
GO:0050688	regulation of defense response to virus	0.0112754494454306
GO:0002862	negative regulation of inflammatory response to antigenic stimulus	0.0112754494454306
GO:0002884	negative regulation of hypersensitivity	0.0112754494454306
GO:0002674	negative regulation of acute inflammatory response	0.0112754494454306
GO:0002707	negative regulation of lymphocyte mediated immunity	0.0112754494454306
GO:0002698	negative regulation of immune effector process	0.014495417890902
GO:0001562	response to protozoan	0.014495417890902
GO:0002709	regulation of T cell mediated immunity	0.0169057622049432
GO:0042535	positive regulation of tumor necrosis factor biosynthetic process	0.0169057622049432
GO:0031254	trailing edge	0.0169057622049432
GO:0002820	negative regulation of adaptive immune response	0.0169057622049432
GO:0001931	uropod	0.0169057622049432
GO:0002823	negative regulation of adaptive immune response based on somatic recombination of immune receptors built from immunoglobulin superfamily domains	0.0169057622049432
GO:0042534	regulation of tumor necrosis factor biosynthetic process	0.0169057622049432
GO:0050777	negative regulation of immune response	0.0169057622049432
GO:0002683	negative regulation of immune system process	0.0169057622049432
GO:0042533	tumor necrosis factor biosynthetic process	0.0169057622049432
GO:0031294	lymphocyte costimulation	0.0186505461425434
GO:0045060	negative thymic T cell selection	0.0186505461425434
GO:0002456	T cell mediated immunity	0.0186505461425434
GO:0043383	negative T cell selection	0.0186505461425434
GO:0031295	T cell costimulation	0.0186505461425434
GO:0051607	defense response to virus	0.0202802464374892
GO:0031348	negative regulation of defense response	0.0213406109698887
GO:0050728	negative regulation of inflammatory response	0.0213406109698887
GO:0002883	regulation of hypersensitivity	0.0213406109698887
GO:0002673	regulation of acute inflammatory response	0.0213406109698887
GO:0002438	acute inflammatory response to antigenic stimulus	0.0213406109698887
GO:0002864	regulation of acute inflammatory response to antigenic stimulus	0.0213406109698887
GO:0002524	hypersensitivity	0.0213406109698887
GO:0000299	integral to membrane of membrane fraction	0.0213406109698887
GO:0007162	negative regulation of cell adhesion	0.0219975137052059
GO:0042130	negative regulation of T cell proliferation	0.0219975137052059
GO:0002861	regulation of inflammatory response to antigenic stimulus	0.0219975137052059
GO:0002437	inflammatory response to antigenic stimulus	0.0219975137052059
GO:0045061	thymic T cell selection	0.0219975137052059
GO:0032640	tumor necrosis factor production	0.0230305870421663
GO:0045058	T cell selection	0.024429934716648
GO:0002703	regulation of leukocyte mediated immunity	0.024429934716648
GO:0002706	regulation of lymphocyte mediated immunity	0.024429934716648
GO:0050868	negative regulation of T cell activation	0.0246732476426524
GO:0008624	induction of apoptosis by extracellular signals	0.0246732476426524
GO:0002697	regulation of immune effector process	0.0246732476426524
GO:0050672	negative regulation of lymphocyte proliferation	0.0246732476426524
GO:0032945	negative regulation of mononuclear cell proliferation	0.0246732476426524
GO:0002819	regulation of adaptive immune response	0.027501868906009
GO:0002822	regulation of adaptive immune response based on somatic recombination of immune receptors built from immunoglobulin superfamily domains.	0.027501868906009
GO:0033077	T cell differentiation in the thymus	0.0301260709408571
GO:0051250	negative regulation of lymphocyte activation	0.0301260709408571
GO:0042102	positive regulation of T cell proliferation	0.0319583419061254
GO:0031347	regulation of defense response	0.0326021990965578
GO:0051241	negative regulation of multicellular organismal process	0.0326021990965578
GO:0050727	regulation of inflammatory response	0.0326021990965578
GO:0042108	positive regulation of cytokine biosynthetic process	0.0353734580124094
GO:0032946	positive regulation of mononuclear cell proliferation	0.0385149164805372
GO:0050671	positive regulation of lymphocyte proliferation	0.0385149164805372
GO:0045727	positive regulation of translation	0.0421072289428701
GO:0042129	regulation of T cell proliferation	0.0432242556945791
GO:0050870	positive regulation of T cell activation	0.0432242556945791
GO:0031328	positive regulation of cellular biosynthetic process	0.0432242556945791
GO:0048583	regulation of response to stimulus	0.0435742622990178
GO:0030155	regulation of cell adhesion	0.0439139104015371
GO:0009615	response to virus	0.0471136079639364
GO:0042035	regulation of cytokine biosynthetic process	0.0473928022269503
GO:0050670	regulation of lymphocyte proliferation	0.0481839177904082
GO:0032944	regulation of mononuclear cell proliferation	0.0481839177904082
GO:0009891	positive regulation of biosynthetic process	0.0481839177904082
GO:0042098	T cell proliferation	0.0486756628513152
GO:0005625	soluble fraction	0.0486756628513152

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
hematopoietic cell	7.77e-12	32
hematopoietic oligopotent progenitor cell	7.77e-12	32
hematopoietic stem cell	7.77e-12	32
angioblastic mesenchymal cell	7.77e-12	32
hematopoietic multipotent progenitor cell	7.77e-12	32
hematopoietic lineage restricted progenitor cell	9.24e-09	25
common myeloid progenitor	6.29e-07	19
lymphoid lineage restricted progenitor cell	8.08e-07	12

Uber Anatomy

Ontology term	p-value	n
hemolymphoid system	9.15e-17	48
immune system	9.15e-17	48
hematopoietic system	2.30e-15	45
blood island	2.30e-15	45
hemopoietic organ	3.67e-11	29
immune organ	3.67e-11	29
mixed endoderm/mesoderm-derived structure	2.90e-09	35
thymus	1.50e-08	23
neck	1.50e-08	23
respiratory system epithelium	1.50e-08	23
hemolymphoid system gland	1.50e-08	23
pharyngeal epithelium	1.50e-08	23
thymic region	1.50e-08	23
pharyngeal gland	1.50e-08	23
entire pharyngeal arch endoderm	1.50e-08	23
thymus primordium	1.50e-08	23
early pharyngeal endoderm	1.50e-08	23
pharynx	4.55e-08	24
gland of gut	4.55e-08	24
upper respiratory tract	4.55e-08	24
chordate pharynx	4.55e-08	24
pharyngeal arch system	4.55e-08	24
pharyngeal region of foregut	4.55e-08	24
lateral plate mesoderm	1.22e-07	87
respiratory tract	4.25e-07	41
respiratory system	7.84e-07	42
mesoderm	9.15e-07	120
mesoderm-derived structure	9.15e-07	120
presumptive mesoderm	9.15e-07	120

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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