MCL coexpression mm9:1496

Phase1 CAGE Peaks

	Short description
Mm9::chr10:126602421..126602454,+	p3@B4galnt1
Mm9::chr11:3004786..3004802,-	p@chr11:3004786..3004802 -
Mm9::chr16:45224438..45224459,+	p3@Btla
Mm9::chr16:45224470..45224477,+	p@chr16:45224470..45224477 +
Mm9::chr1:140072269..140072281,-	p7@Ptprc

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:0042100	B cell proliferation	0.000987627375769529
GO:0002768	immune response-regulating cell surface receptor signaling pathway	0.000987627375769529
GO:0002764	immune response-regulating signal transduction	0.000987627375769529
GO:0042129	regulation of T cell proliferation	0.000987627375769529
GO:0032944	regulation of mononuclear cell proliferation	0.000987627375769529
GO:0050670	regulation of lymphocyte proliferation	0.000987627375769529
GO:0042098	T cell proliferation	0.000987627375769529
GO:0050863	regulation of T cell activation	0.00113618692507234
GO:0032943	mononuclear cell proliferation	0.00125657145191464
GO:0046651	lymphocyte proliferation	0.00125657145191464
GO:0051249	regulation of lymphocyte activation	0.00130742180675326
GO:0042113	B cell activation	0.00130742180675326
GO:0050865	regulation of cell activation	0.00130742180675326
GO:0042110	T cell activation	0.00229019272800312
GO:0001915	negative regulation of T cell mediated cytotoxicity	0.00250650800414308
GO:0003947	(N-acetylneuraminyl)-galactosylglucosylceramide N-acetylgalactosaminyltransferase activity	0.00250650800414308
GO:0009897	external side of plasma membrane	0.00250650800414308
GO:0009986	cell surface	0.00364831547158889
GO:0046649	lymphocyte activation	0.00364831547158889
GO:0001960	negative regulation of cytokine and chemokine mediated signaling pathway	0.00364831547158889
GO:0046642	negative regulation of alpha-beta T cell proliferation	0.00364831547158889
GO:0045321	leukocyte activation	0.00364831547158889
GO:0001775	cell activation	0.00364831547158889
GO:0001916	positive regulation of T cell mediated cytotoxicity	0.00364831547158889
GO:0051283	negative regulation of sequestering of calcium ion	0.00364831547158889
GO:0001574	ganglioside biosynthetic process	0.00364831547158889
GO:0051208	sequestering of calcium ion	0.00364831547158889
GO:0002711	positive regulation of T cell mediated immunity	0.00364831547158889
GO:0001959	regulation of cytokine and chemokine mediated signaling pathway	0.00364831547158889
GO:0001914	regulation of T cell mediated cytotoxicity	0.00364831547158889
GO:0051238	sequestering of metal ion	0.00364831547158889
GO:0046636	negative regulation of alpha-beta T cell activation	0.00364831547158889
GO:0051282	regulation of sequestering of calcium ion	0.00364831547158889
GO:0050857	positive regulation of antigen receptor-mediated signaling pathway	0.00364831547158889
GO:0051209	release of sequestered calcium ion into cytosol	0.00364831547158889
GO:0002709	regulation of T cell mediated immunity	0.00436526650418391
GO:0001911	negative regulation of leukocyte mediated cytotoxicity	0.00436526650418391
GO:0030259	lipid glycosylation	0.00436526650418391
GO:0001913	T cell mediated cytotoxicity	0.00436526650418391
GO:0051239	regulation of multicellular organismal process	0.00444467753486734
GO:0006688	glycosphingolipid biosynthetic process	0.0051901239530375
GO:0042127	regulation of cell proliferation	0.00549853888593896
GO:0050853	B cell receptor signaling pathway	0.00692745276002293
GO:0001573	ganglioside metabolic process	0.00724289717845153
GO:0002456	T cell mediated immunity	0.00724289717845153
GO:0030889	negative regulation of B cell proliferation	0.00724289717845153
GO:0009247	glycolipid biosynthetic process	0.00724289717845153
GO:0046640	regulation of alpha-beta T cell proliferation	0.00781524904835845
GO:0051607	defense response to virus	0.00781524904835845
GO:0019915	sequestering of lipid	0.00834261915458024
GO:0006687	glycosphingolipid metabolic process	0.00834261915458024
GO:0050854	regulation of antigen receptor-mediated signaling pathway	0.00866657941083101
GO:0050869	negative regulation of B cell activation	0.00866657941083101
GO:0046634	regulation of alpha-beta T cell activation	0.00866657941083101
GO:0008283	cell proliferation	0.0088796772213343
GO:0046633	alpha-beta T cell proliferation	0.0089563567987543
GO:0001912	positive regulation of leukocyte mediated cytotoxicity	0.0089563567987543
GO:0006955	immune response	0.00897164778533966
GO:0042130	negative regulation of T cell proliferation	0.00981593102114039
GO:0002705	positive regulation of leukocyte mediated immunity	0.00981593102114039
GO:0051235	maintenance of localization	0.00981593102114039
GO:0031341	regulation of cell killing	0.00981593102114039
GO:0002708	positive regulation of lymphocyte mediated immunity	0.00981593102114039
GO:0030148	sphingolipid biosynthetic process	0.00981593102114039
GO:0001910	regulation of leukocyte mediated cytotoxicity	0.00981593102114039
GO:0002699	positive regulation of immune effector process	0.0101572226932141
GO:0006664	glycolipid metabolic process	0.0101572226932141
GO:0007204	elevation of cytosolic calcium ion concentration	0.0103289666262468
GO:0002703	regulation of leukocyte mediated immunity	0.0103289666262468
GO:0002706	regulation of lymphocyte mediated immunity	0.0103289666262468
GO:0002824	positive regulation of adaptive immune response based on somatic recombination of immune receptors built from immunoglobulin superfamily domains	0.010344820902777
GO:0050868	negative regulation of T cell activation	0.010344820902777
GO:0008376	acetylgalactosaminyltransferase activity	0.010344820902777
GO:0002821	positive regulation of adaptive immune response	0.010344820902777
GO:0002697	regulation of immune effector process	0.0103589893539178
GO:0050672	negative regulation of lymphocyte proliferation	0.0103589893539178
GO:0051480	cytosolic calcium ion homeostasis	0.0103589893539178
GO:0032945	negative regulation of mononuclear cell proliferation	0.0103589893539178
GO:0030888	regulation of B cell proliferation	0.0112701985488289
GO:0001909	leukocyte mediated cytotoxicity	0.0112701985488289
GO:0001906	cell killing	0.0112701985488289
GO:0002819	regulation of adaptive immune response	0.0112701985488289
GO:0002822	regulation of adaptive immune response based on somatic recombination of immune receptors built from immunoglobulin superfamily domains.	0.0112701985488289
GO:0006672	ceramide metabolic process	0.0115046148733659
GO:0030258	lipid modification	0.0115046148733659
GO:0030173	integral to Golgi membrane	0.0119416837886238
GO:0046519	sphingoid metabolic process	0.0119416837886238
GO:0031228	intrinsic to Golgi membrane	0.0119416837886238
GO:0051250	negative regulation of lymphocyte activation	0.0119416837886238
GO:0050851	antigen receptor-mediated signaling pathway	0.0124750958328535
GO:0005925	focal adhesion	0.0124750958328535
GO:0042102	positive regulation of T cell proliferation	0.0124750958328535
GO:0002376	immune system process	0.0125726643711438
GO:0005924	cell-substrate adherens junction	0.0138679036118073
GO:0046631	alpha-beta T cell activation	0.0138679036118073
GO:0002429	immune response-activating cell surface receptor signaling pathway	0.0141653615311815
GO:0030055	cell-matrix junction	0.0147069576839938
GO:0030183	B cell differentiation	0.0147069576839938
GO:0048523	negative regulation of cellular process	0.0147069576839938
GO:0032946	positive regulation of mononuclear cell proliferation	0.0147069576839938
GO:0002757	immune response-activating signal transduction	0.0147069576839938
GO:0006469	negative regulation of protein kinase activity	0.0147069576839938
GO:0033673	negative regulation of kinase activity	0.0147069576839938
GO:0050671	positive regulation of lymphocyte proliferation	0.0147069576839938
GO:0050864	regulation of B cell activation	0.0149707065010711
GO:0051348	negative regulation of transferase activity	0.0152294350073338
GO:0048519	negative regulation of biological process	0.0162830468959154
GO:0006665	sphingolipid metabolic process	0.0165171969946909
GO:0050870	positive regulation of T cell activation	0.0167544030354514
GO:0019221	cytokine and chemokine mediated signaling pathway	0.0173723752787155
GO:0043086	negative regulation of catalytic activity	0.0179790452016474
GO:0019901	protein kinase binding	0.0181966375578793
GO:0009615	response to virus	0.0184103375493916
GO:0019900	kinase binding	0.0184583324124759
GO:0031301	integral to organelle membrane	0.0184583324124759
GO:0031300	intrinsic to organelle membrane	0.020123610986793
GO:0006874	cellular calcium ion homeostasis	0.0213896047952791
GO:0005912	adherens junction	0.0213896047952791
GO:0055074	calcium ion homeostasis	0.0213896047952791
GO:0051251	positive regulation of lymphocyte activation	0.0213896047952791
GO:0030217	T cell differentiation	0.0213896047952791
GO:0006875	cellular metal ion homeostasis	0.0229468613137807
GO:0055065	metal ion homeostasis	0.0234474349854449
GO:0000139	Golgi membrane	0.0235990826085657
GO:0016323	basolateral plasma membrane	0.0237482666926464
GO:0046467	membrane lipid biosynthetic process	0.0242302665272944
GO:0002253	activation of immune response	0.0257018337805838
GO:0043413	biopolymer glycosylation	0.0261605319984295
GO:0008194	UDP-glycosyltransferase activity	0.028029654037201
GO:0004725	protein tyrosine phosphatase activity	0.028029654037201
GO:0002250	adaptive immune response	0.0285632234116239
GO:0002460	adaptive immune response based on somatic recombination of immune receptors built from immunoglobulin superfamily domains	0.0285632234116239
GO:0009968	negative regulation of signal transduction	0.0286654112364548
GO:0030098	lymphocyte differentiation	0.0288651420565354
GO:0002449	lymphocyte mediated immunity	0.0288651420565354
GO:0030005	cellular di-, tri-valent inorganic cation homeostasis	0.0295823609825766
GO:0050778	positive regulation of immune response	0.0296739229998401
GO:0055066	di-, tri-valent inorganic cation homeostasis	0.0298529945699952
GO:0002684	positive regulation of immune system process	0.0298529945699952
GO:0002443	leukocyte mediated immunity	0.0299405620188862
GO:0030003	cellular cation homeostasis	0.0312210729278844
GO:0006470	protein amino acid dephosphorylation	0.031593914463362
GO:0055080	cation homeostasis	0.0316672110673864
GO:0050776	regulation of immune response	0.0324807880405482
GO:0044459	plasma membrane part	0.0324807880405482
GO:0002682	regulation of immune system process	0.0327449710873612
GO:0043412	biopolymer modification	0.0332728919083019
GO:0051240	positive regulation of multicellular organismal process	0.0332728919083019
GO:0016311	dephosphorylation	0.0332728919083019
GO:0008285	negative regulation of cell proliferation	0.0332728919083019
GO:0002521	leukocyte differentiation	0.0353220015837589
GO:0045859	regulation of protein kinase activity	0.0353220015837589
GO:0006917	induction of apoptosis	0.0354084129998478
GO:0012502	induction of programmed cell death	0.0354084129998478
GO:0043549	regulation of kinase activity	0.0356539908169318
GO:0044431	Golgi apparatus part	0.0356539908169318
GO:0019899	enzyme binding	0.0356539908169318
GO:0016758	transferase activity, transferring hexosyl groups	0.0356539908169318
GO:0002252	immune effector process	0.0356539908169318
GO:0051338	regulation of transferase activity	0.0356539908169318
GO:0004721	phosphoprotein phosphatase activity	0.0377760273175131
GO:0006873	cellular ion homeostasis	0.0378265910635761
GO:0055082	cellular chemical homeostasis	0.0378265910635761
GO:0006643	membrane lipid metabolic process	0.0388727940883598
GO:0043065	positive regulation of apoptosis	0.0416802166691896
GO:0051707	response to other organism	0.0416810069524464
GO:0043068	positive regulation of programmed cell death	0.041681760089472
GO:0050801	ion homeostasis	0.0416824767451136
GO:0008284	positive regulation of cell proliferation	0.0439078312950332
GO:0016021	integral to membrane	0.045164041073696
GO:0031224	intrinsic to membrane	0.045164041073696
GO:0005886	plasma membrane	0.045164041073696

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
mature alpha-beta T cell	6.00e-13	9
alpha-beta T cell	6.00e-13	9
immature T cell	6.00e-13	9
mature T cell	6.00e-13	9
immature alpha-beta T cell	6.00e-13	9
hematopoietic lineage restricted progenitor cell	1.05e-11	25
CD4-positive, alpha-beta T cell	1.18e-11	8
lymphoid lineage restricted progenitor cell	2.52e-11	12
hematopoietic cell	4.35e-11	32
hematopoietic oligopotent progenitor cell	4.35e-11	32
hematopoietic stem cell	4.35e-11	32
angioblastic mesenchymal cell	4.35e-11	32
hematopoietic multipotent progenitor cell	4.35e-11	32
lymphocyte	3.20e-10	13
common lymphoid progenitor	3.20e-10	13
T cell	4.11e-10	11
pro-T cell	4.11e-10	11
thymocyte	1.65e-09	6
double negative thymocyte	1.65e-09	6
naive T cell	1.65e-09	6
double-positive, alpha-beta thymocyte	1.65e-09	6
CD4-positive, alpha-beta thymocyte	1.65e-09	6
naive thymus-derived CD4-positive, alpha-beta T cell	1.65e-09	6
DN4 thymocyte	1.65e-09	6
DN1 thymic pro-T cell	1.65e-09	6
DN2 thymocyte	1.65e-09	6
DN3 thymocyte	1.65e-09	6
immature single positive thymocyte	1.65e-09	6
early T lineage precursor	1.65e-09	6
mature CD4 single-positive thymocyte	1.65e-09	6
resting double-positive thymocyte	1.65e-09	6
double-positive blast	1.65e-09	6
CD69-positive double-positive thymocyte	1.65e-09	6
CD69-positive, CD4-positive single-positive thymocyte	1.65e-09	6
CD4-positive, CD8-intermediate double-positive thymocyte	1.65e-09	6
CD24-positive, CD4 single-positive thymocyte	1.65e-09	6
megakaryocyte progenitor cell	1.52e-08	6
megakaryocyte	1.52e-08	6
nucleate cell	9.28e-08	16
leukocyte	3.88e-07	17
nongranular leukocyte	3.88e-07	17

Uber Anatomy

Ontology term	p-value	n
hemolymphoid system	9.83e-26	48
immune system	9.83e-26	48
hemopoietic organ	1.20e-22	29
immune organ	1.20e-22	29
hematopoietic system	1.79e-22	45
blood island	1.79e-22	45
gland of gut	9.64e-20	24
thymus	1.14e-18	23
neck	1.14e-18	23
respiratory system epithelium	1.14e-18	23
hemolymphoid system gland	1.14e-18	23
pharyngeal epithelium	1.14e-18	23
thymic region	1.14e-18	23
pharyngeal gland	1.14e-18	23
entire pharyngeal arch endoderm	1.14e-18	23
thymus primordium	1.14e-18	23
early pharyngeal endoderm	1.14e-18	23
pharynx	1.28e-17	24
upper respiratory tract	1.28e-17	24
chordate pharynx	1.28e-17	24
pharyngeal arch system	1.28e-17	24
pharyngeal region of foregut	1.28e-17	24
mixed endoderm/mesoderm-derived structure	2.27e-17	35
foregut	4.37e-15	80
segment of respiratory tract	5.94e-15	27
respiratory system	4.81e-14	42
respiratory tract	3.62e-13	41
organ segment	2.26e-11	35
craniocervical region	5.77e-11	36
digestive system	7.54e-11	116
digestive tract	7.54e-11	116
primitive gut	7.54e-11	116
endoderm-derived structure	1.88e-10	118
endoderm	1.88e-10	118
presumptive endoderm	1.88e-10	118
lateral plate mesoderm	8.04e-10	87
endo-epithelium	8.96e-10	69
subdivision of digestive tract	1.09e-09	114
gut epithelium	1.80e-09	55
endocrine gland	8.90e-09	60
gland	2.23e-08	65
unilaminar epithelium	3.04e-08	66
anterior region of body	3.42e-08	43
mesoderm	4.63e-07	120
mesoderm-derived structure	4.63e-07	120
presumptive mesoderm	4.63e-07	120
endocrine system	9.70e-07	72

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)
{{{tfbs_overrepresentation_jaspar}}}