MCL coexpression mm9:1890

Phase1 CAGE Peaks

	Short description
Mm9::chr10:33847761..33847786,-	p1@Fam26f
Mm9::chr12:109873953..109874049,+	p3@Evl
Mm9::chr6:125021344..125021363,+	p2@Lpar5
Mm9::chr9:108959809..108959823,+	p@chr9:108959809..108959823 +

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:0045010	actin nucleation	0.0102266294125167
GO:0005522	profilin binding	0.0102266294125167
GO:0017124	SH3 domain binding	0.0102266294125167
GO:0030168	platelet activation	0.0102266294125167
GO:0030048	actin filament-based movement	0.0102266294125167
GO:0051016	barbed-end actin filament capping	0.0102266294125167
GO:0051693	actin filament capping	0.0102266294125167
GO:0030835	negative regulation of actin filament depolymerization	0.0102266294125167
GO:0030834	regulation of actin filament depolymerization	0.0102266294125167
GO:0030042	actin filament depolymerization	0.0102266294125167
GO:0005925	focal adhesion	0.0102266294125167
GO:0008064	regulation of actin polymerization and/or depolymerization	0.0102266294125167
GO:0005924	cell-substrate adherens junction	0.0102266294125167
GO:0051261	protein depolymerization	0.0102266294125167
GO:0032535	regulation of cellular component size	0.0102266294125167
GO:0032956	regulation of actin cytoskeleton organization and biogenesis	0.0102266294125167
GO:0030832	regulation of actin filament length	0.0102266294125167
GO:0051493	regulation of cytoskeleton organization and biogenesis	0.0102266294125167
GO:0033043	regulation of organelle organization and biogenesis	0.0102266294125167
GO:0051129	negative regulation of cellular component organization and biogenesis	0.0102266294125167
GO:0030055	cell-matrix junction	0.0102266294125167
GO:0008154	actin polymerization and/or depolymerization	0.0111563229954727
GO:0030027	lamellipodium	0.0118336711773407
GO:0007596	blood coagulation	0.0118336711773407
GO:0019904	protein domain specific binding	0.0118336711773407
GO:0051128	regulation of cellular component organization and biogenesis	0.0118336711773407
GO:0007599	hemostasis	0.0118336711773407
GO:0050817	coagulation	0.0118336711773407
GO:0005912	adherens junction	0.0129067116033831
GO:0051248	negative regulation of protein metabolic process	0.0134224511039281
GO:0016323	basolateral plasma membrane	0.0134224511039281
GO:0050878	regulation of body fluid levels	0.0134224511039281
GO:0031252	leading edge	0.0138497781186654
GO:0007411	axon guidance	0.0138497781186654
GO:0042060	wound healing	0.0138497781186654
GO:0030705	cytoskeleton-dependent intracellular transport	0.0167034947071106
GO:0007409	axonogenesis	0.0246935685814427
GO:0030036	actin cytoskeleton organization and biogenesis	0.0246935685814427
GO:0048667	neuron morphogenesis during differentiation	0.0246935685814427
GO:0048812	neurite morphogenesis	0.0246935685814427
GO:0030029	actin filament-based process	0.0246935685814427
GO:0000904	cellular morphogenesis during differentiation	0.0270275205902226
GO:0031175	neurite development	0.0278259451456849
GO:0048666	neuron development	0.0301344680022158
GO:0001775	cell activation	0.0301344680022158
GO:0051246	regulation of protein metabolic process	0.03067988823755
GO:0003779	actin binding	0.0315937572488813
GO:0032990	cell part morphogenesis	0.0326858809300052
GO:0030030	cell projection organization and biogenesis	0.0326858809300052
GO:0048858	cell projection morphogenesis	0.0326858809300052
GO:0016477	cell migration	0.0326858809300052
GO:0030182	neuron differentiation	0.0326858809300052
GO:0009611	response to wounding	0.033342670990243
GO:0048699	generation of neurons	0.0351518719467522
GO:0051674	localization of cell	0.0351518719467522
GO:0006928	cell motility	0.0351518719467522
GO:0009892	negative regulation of metabolic process	0.0351518719467522
GO:0008092	cytoskeletal protein binding	0.0351518719467522
GO:0022008	neurogenesis	0.0351518719467522
GO:0042995	cell projection	0.0372249310615607
GO:0030054	cell junction	0.0385258924425628
GO:0009605	response to external stimulus	0.0433477130582158
GO:0007010	cytoskeleton organization and biogenesis	0.0434238418131477
GO:0000902	cell morphogenesis	0.0434238418131477
GO:0032989	cellular structure morphogenesis	0.0434238418131477

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	1.04e-13	32
hematopoietic oligopotent progenitor cell	1.04e-13	32
hematopoietic stem cell	1.04e-13	32
angioblastic mesenchymal cell	1.04e-13	32
hematopoietic multipotent progenitor cell	1.04e-13	32
hematopoietic lineage restricted progenitor cell	8.45e-12	25
leukocyte	1.58e-09	17
nongranular leukocyte	1.58e-09	17
connective tissue cell	1.70e-08	46
mesenchymal cell	1.70e-08	46
common myeloid progenitor	6.89e-08	19
lymphoid lineage restricted progenitor cell	6.97e-08	12
T cell	2.13e-07	11
pro-T cell	2.13e-07	11
lymphocyte	4.60e-07	13
common lymphoid progenitor	4.60e-07	13

Uber Anatomy

Ontology term	p-value	n
hemolymphoid system	1.94e-21	48
immune system	1.94e-21	48
hematopoietic system	5.64e-20	45
blood island	5.64e-20	45
digestive system	1.63e-11	116
digestive tract	1.63e-11	116
primitive gut	1.63e-11	116
endoderm-derived structure	2.70e-11	118
endoderm	2.70e-11	118
presumptive endoderm	2.70e-11	118
subdivision of digestive tract	7.12e-11	114
hemopoietic organ	1.46e-10	29
immune organ	1.46e-10	29
bone marrow	1.70e-10	16
bone element	5.28e-09	22
skeletal element	5.28e-09	22
skeletal system	5.28e-09	22
foregut	7.73e-09	80
mixed endoderm/mesoderm-derived structure	8.41e-09	35
connective tissue	1.70e-08	46
gland of gut	4.00e-08	24
lateral plate mesoderm	5.26e-08	87
thymus	1.02e-07	23
neck	1.02e-07	23
respiratory system epithelium	1.02e-07	23
hemolymphoid system gland	1.02e-07	23
pharyngeal epithelium	1.02e-07	23
thymic region	1.02e-07	23
pharyngeal gland	1.02e-07	23
entire pharyngeal arch endoderm	1.02e-07	23
thymus primordium	1.02e-07	23
early pharyngeal endoderm	1.02e-07	23
pharynx	1.29e-07	24
upper respiratory tract	1.29e-07	24
chordate pharynx	1.29e-07	24
pharyngeal arch system	1.29e-07	24
pharyngeal region of foregut	1.29e-07	24
musculoskeletal system	7.42e-07	32

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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