MCL coexpression mm9:640

Phase1 CAGE Peaks

	Short description
Mm9::chr10:66648428..66648445,+	p8@Jmjd1c
Mm9::chr10:66648451..66648471,+	p3@Jmjd1c
Mm9::chr10:66648478..66648516,+	p2@Jmjd1c
Mm9::chr10:66648821..66648848,+	p9@Jmjd1c
Mm9::chr11:116704477..116704546,-	p2@Jmjd6
Mm9::chr13:112598892..112598909,-	p2@Map3k1
Mm9::chr15:100563143..100563171,-	p1@uc007xsd.1
Mm9::chr2:17985518..17985540,+	p6@Mllt10
Mm9::chr4:102243124..102243149,+	p3@Pde4b
Mm9::chr5:77017688..77017767,+	p1@Cep135
Mm9::chr9:72379740..72379757,+	p7@Rfx7

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:0008632	apoptotic program	0.00530556953661704
GO:0051213	dioxygenase activity	0.00530556953661704
GO:0016702	oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen	0.00530556953661704
GO:0016701	oxidoreductase activity, acting on single donors with incorporation of molecular oxygen	0.00530556953661704
GO:0043010	camera-type eye development	0.00664349386223486
GO:0043654	recognition of apoptotic cell	0.00786563461192289
GO:0008545	JUN kinase kinase activity	0.00786563461192289
GO:0001654	eye development	0.00798859897006268
GO:0030838	positive regulation of actin filament polymerization	0.0183491254813308
GO:0007423	sensory organ development	0.0200150343694242
GO:0043277	apoptotic cell clearance	0.0200150343694242
GO:0004115	3',5'-cyclic-AMP phosphodiesterase activity	0.0229313805203644
GO:0004708	MAP kinase kinase activity	0.0253981304505282
GO:0004712	protein serine/threonine/tyrosine kinase activity	0.028809073084668
GO:0042116	macrophage activation	0.028809073084668
GO:0060041	retina development in camera-type eye	0.028809073084668
GO:0048821	erythrocyte development	0.028809073084668
GO:0030833	regulation of actin filament polymerization	0.028809073084668
GO:0007257	activation of JNK activity	0.028809073084668
GO:0043507	positive regulation of JNK activity	0.028809073084668
GO:0006910	phagocytosis, recognition	0.028809073084668
GO:0043506	regulation of JNK activity	0.0374829797204489
GO:0004709	MAP kinase kinase kinase activity	0.0389321176228364
GO:0030041	actin filament polymerization	0.0389321176228364
GO:0008637	apoptotic mitochondrial changes	0.0417627181151422
GO:0004114	3',5'-cyclic-nucleotide phosphodiesterase activity	0.049417168428541
GO:0033077	T cell differentiation in the thymus	0.049417168428541
GO:0004112	cyclic-nucleotide phosphodiesterase activity	0.049417168428541
GO:0002274	myeloid leukocyte activation	0.049417168428541
GO:0008064	regulation of actin polymerization and/or depolymerization	0.049417168428541
GO:0008270	zinc ion binding	0.049417168428541
GO:0032535	regulation of cellular component size	0.049417168428541
GO:0032956	regulation of actin cytoskeleton organization and biogenesis	0.049417168428541
GO:0030832	regulation of actin filament length	0.049417168428541
GO:0051493	regulation of cytoskeleton organization and biogenesis	0.049417168428541
GO:0033043	regulation of organelle organization and biogenesis	0.049417168428541
GO:0000187	activation of MAPK activity	0.049417168428541
GO:0030218	erythrocyte differentiation	0.049417168428541
GO:0006915	apoptosis	0.049417168428541
GO:0006909	phagocytosis	0.049417168428541
GO:0012501	programmed cell death	0.049417168428541
GO:0051258	protein polymerization	0.049417168428541
GO:0008154	actin polymerization and/or depolymerization	0.049417168428541
GO:0043406	positive regulation of MAP kinase activity	0.049417168428541
GO:0008219	cell death	0.049417168428541
GO:0016265	death	0.049417168428541
GO:0007254	JNK cascade	0.049417168428541
GO:0008037	cell recognition	0.049417168428541
GO:0007179	transforming growth factor beta receptor signaling pathway	0.049417168428541
GO:0031098	stress-activated protein kinase signaling pathway	0.049417168428541
GO:0004702	receptor signaling protein serine/threonine kinase activity	0.049417168428541

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	1.54e-09	32
hematopoietic oligopotent progenitor cell	1.54e-09	32
hematopoietic stem cell	1.54e-09	32
angioblastic mesenchymal cell	1.54e-09	32
hematopoietic multipotent progenitor cell	1.54e-09	32
lymphoid lineage restricted progenitor cell	2.66e-08	12
T cell	1.33e-07	11
pro-T cell	1.33e-07	11
lymphocyte	1.58e-07	13
common lymphoid progenitor	1.58e-07	13
hematopoietic lineage restricted progenitor cell	7.22e-07	25
mature alpha-beta T cell	9.98e-07	9
alpha-beta T cell	9.98e-07	9
immature T cell	9.98e-07	9
mature T cell	9.98e-07	9
immature alpha-beta T cell	9.98e-07	9

Uber Anatomy

Ontology term	p-value	n
hemolymphoid system	2.52e-12	48
immune system	2.52e-12	48
hematopoietic system	4.53e-11	45
blood island	4.53e-11	45
hemopoietic organ	1.19e-09	29
immune organ	1.19e-09	29
lateral plate mesoderm	1.73e-08	87
mixed endoderm/mesoderm-derived structure	9.11e-08	35
gland of gut	1.33e-07	24
thymus	2.60e-07	23
neck	2.60e-07	23
respiratory system epithelium	2.60e-07	23
hemolymphoid system gland	2.60e-07	23
pharyngeal epithelium	2.60e-07	23
thymic region	2.60e-07	23
pharyngeal gland	2.60e-07	23
entire pharyngeal arch endoderm	2.60e-07	23
thymus primordium	2.60e-07	23
early pharyngeal endoderm	2.60e-07	23
pharynx	3.44e-07	24
upper respiratory tract	3.44e-07	24
chordate pharynx	3.44e-07	24
pharyngeal arch system	3.44e-07	24
pharyngeal region of foregut	3.44e-07	24
respiratory system	6.25e-07	42

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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