MCL coexpression mm9:3329

Phase1 CAGE Peaks

	Short description
Mm9::chr2:163484251..163484262,+	p3@Gm6334 p3@Pkig
Mm9::chr4:123241850..123241865,-	p5@Macf1
Mm9::chr4:123241868..123241875,-	p7@Macf1

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:0006620	posttranslational protein targeting to membrane	0.0124910973538596
GO:0045047	protein targeting to ER	0.0160599823121053
GO:0007163	establishment and/or maintenance of cell polarity	0.0160599823121053
GO:0001707	mesoderm formation	0.0160599823121053
GO:0048332	mesoderm morphogenesis	0.0160599823121053
GO:0006612	protein targeting to membrane	0.0160599823121053
GO:0001704	formation of primary germ layer	0.0160599823121053
GO:0007050	cell cycle arrest	0.0204021256779708
GO:0008017	microtubule binding	0.0204021256779708
GO:0007498	mesoderm development	0.0204021256779708
GO:0015631	tubulin binding	0.0208184955897661
GO:0007369	gastrulation	0.0215124454427583
GO:0048729	tissue morphogenesis	0.0240213410651147
GO:0045786	negative regulation of progression through cell cycle	0.0335871728848226
GO:0016055	Wnt receptor signaling pathway	0.0335871728848226
GO:0045045	secretory pathway	0.0395551416205555
GO:0000074	regulation of progression through cell cycle	0.0395551416205555
GO:0048646	anatomical structure formation	0.0395551416205555
GO:0006605	protein targeting	0.0395551416205555
GO:0015629	actin cytoskeleton	0.0395551416205555
GO:0032940	secretion by cell	0.0408439056332553
GO:0003779	actin binding	0.0458006902974854
GO:0046903	secretion	0.0468868726760818
GO:0009888	tissue development	0.0476327179093848
GO:0015630	microtubule cytoskeleton	0.0476327179093848
GO:0051674	localization of cell	0.0496669823355848
GO:0006928	cell motility	0.0496669823355848
GO:0008092	cytoskeletal protein binding	0.0496669823355848

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
lymphoid lineage restricted progenitor cell	1.96e-10	12
T cell	1.53e-09	11
pro-T cell	1.53e-09	11
lymphocyte	2.77e-09	13
common lymphoid progenitor	2.77e-09	13
mature alpha-beta T cell	1.93e-08	9
alpha-beta T cell	1.93e-08	9
immature T cell	1.93e-08	9
mature T cell	1.93e-08	9
immature alpha-beta T cell	1.93e-08	9
hematopoietic lineage restricted progenitor cell	6.72e-08	25
CD4-positive, alpha-beta T cell	1.44e-07	8
nucleate cell	9.69e-07	16

Uber Anatomy

Ontology term	p-value	n
lateral plate mesoderm	1.19e-16	87
primary circulatory organ	2.00e-12	18
heart	2.00e-12	18
primitive heart tube	2.00e-12	18
primary heart field	2.00e-12	18
anterior lateral plate mesoderm	2.00e-12	18
heart tube	2.00e-12	18
heart primordium	2.00e-12	18
cardiac mesoderm	2.00e-12	18
cardiogenic plate	2.00e-12	18
heart rudiment	2.00e-12	18
splanchnic layer of lateral plate mesoderm	1.68e-11	33
hemopoietic organ	3.35e-11	29
immune organ	3.35e-11	29
hemolymphoid system	1.57e-10	48
immune system	1.57e-10	48
mixed endoderm/mesoderm-derived structure	1.67e-10	35
mesoderm	2.81e-10	120
mesoderm-derived structure	2.81e-10	120
presumptive mesoderm	2.81e-10	120
pharynx	2.09e-09	24
upper respiratory tract	2.09e-09	24
chordate pharynx	2.09e-09	24
pharyngeal arch system	2.09e-09	24
pharyngeal region of foregut	2.09e-09	24
hematopoietic system	6.00e-09	45
blood island	6.00e-09	45
thymus	1.08e-08	23
neck	1.08e-08	23
respiratory system epithelium	1.08e-08	23
hemolymphoid system gland	1.08e-08	23
pharyngeal epithelium	1.08e-08	23
thymic region	1.08e-08	23
pharyngeal gland	1.08e-08	23
entire pharyngeal arch endoderm	1.08e-08	23
thymus primordium	1.08e-08	23
early pharyngeal endoderm	1.08e-08	23
cardiovascular system	2.46e-08	23
circulatory system	2.46e-08	23
gland of gut	4.47e-08	24
segment of respiratory tract	1.23e-07	27
respiratory tract	7.56e-07	41

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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