MCL coexpression mm9:484

Phase1 CAGE Peaks

	Short description
Mm9::chr10:94977804..94977814,+	p4@Mcg1038069 p4@Ube2n
Mm9::chr11:3024046..3024057,+	p3@Pisd-ps3
Mm9::chr15:91537149..91537152,+	p@chr15:91537149..91537152 +
Mm9::chr18:35931228..35931253,+	p4@Ube2d2
Mm9::chr18:35931264..35931269,+	p8@Ube2d2
Mm9::chr19:61242876..61242882,+	p@chr19:61242876..61242882 +
Mm9::chr19:9633694..9633738,-	p1@ENSMUST00000090527
Mm9::chr1:107352544..107352553,+	p1@ENSMUST00000086725
Mm9::chr1:4761175..4761203,+	p@chr1:4761175..4761203 +
Mm9::chr3:92493213..92493228,+	p@chr3:92493213..92493228 +
Mm9::chr3:92493229..92493259,+	p1@ENSMUST00000169025
Mm9::chr4:103235928..103235936,+	p1@ENSMUST00000079345
Mm9::chr5:8971911..8971920,+	p1@ENSMUST00000104982
Mm9::chr6:46994593..46994618,+	p6@Cntnap2
Mm9::chr9:62257059..62257102,+	p@chr9:62257059..62257102 +

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:0004842	ubiquitin-protein ligase activity	0.00128265225111418
GO:0008639	small protein conjugating enzyme activity	0.00128265225111418
GO:0019787	small conjugating protein ligase activity	0.00128265225111418
GO:0006511	ubiquitin-dependent protein catabolic process	0.00128265225111418
GO:0043632	modification-dependent macromolecule catabolic process	0.00128265225111418
GO:0019941	modification-dependent protein catabolic process	0.00128265225111418
GO:0051603	proteolysis involved in cellular protein catabolic process	0.00128265225111418
GO:0044257	cellular protein catabolic process	0.00128265225111418
GO:0016881	acid-amino acid ligase activity	0.00128265225111418
GO:0016879	ligase activity, forming carbon-nitrogen bonds	0.00175439577964413
GO:0030163	protein catabolic process	0.00193202443631754
GO:0044265	cellular macromolecule catabolic process	0.00284655464124699
GO:0043285	biopolymer catabolic process	0.00284655464124699
GO:0009057	macromolecule catabolic process	0.0042178770412939
GO:0016874	ligase activity	0.00481300063153218
GO:0044248	cellular catabolic process	0.00718152715250053
GO:0006512	ubiquitin cycle	0.00774700785183523
GO:0051092	activation of NF-kappaB transcription factor	0.0099638634077022
GO:0009056	catabolic process	0.010013119315629
GO:0050852	T cell receptor signaling pathway	0.0115270861488087
GO:0006508	proteolysis	0.0116422451271434
GO:0051091	positive regulation of transcription factor activity	0.0116422451271434
GO:0051090	regulation of transcription factor activity	0.0139162613497778
GO:0050851	antigen receptor-mediated signaling pathway	0.0144017515599351
GO:0002429	immune response-activating cell surface receptor signaling pathway	0.0163815022618512
GO:0002768	immune response-regulating cell surface receptor signaling pathway	0.0167340748867441
GO:0002757	immune response-activating signal transduction	0.017060323285079
GO:0002764	immune response-regulating signal transduction	0.0173630679316928
GO:0002253	activation of immune response	0.0338972660671632
GO:0043687	post-translational protein modification	0.0346689203717076
GO:0050778	positive regulation of immune response	0.0390523850299093
GO:0002684	positive regulation of immune system process	0.0390523850299093
GO:0006464	protein modification process	0.0392211885276638
GO:0005515	protein binding	0.0392211885276638
GO:0050776	regulation of immune response	0.0392211885276638
GO:0002682	regulation of immune system process	0.0392211885276638
GO:0043412	biopolymer modification	0.0392211885276638
GO:0051240	positive regulation of multicellular organismal process	0.0392211885276638

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
somatic cell	3.88e-24	118
animal cell	1.31e-21	115
eukaryotic cell	1.31e-21	115
hematopoietic cell	3.73e-20	32
hematopoietic oligopotent progenitor cell	3.73e-20	32
hematopoietic stem cell	3.73e-20	32
angioblastic mesenchymal cell	3.73e-20	32
hematopoietic multipotent progenitor cell	3.73e-20	32
connective tissue cell	1.08e-17	46
mesenchymal cell	1.08e-17	46
hematopoietic lineage restricted progenitor cell	2.64e-17	25
epithelial cell	3.50e-17	25
motile cell	1.20e-16	54
endo-epithelial cell	2.14e-15	15
lymphoid lineage restricted progenitor cell	9.88e-14	12
stem cell	1.62e-13	97
leukocyte	6.09e-13	17
nongranular leukocyte	6.09e-13	17
endodermal cell	1.51e-12	20
lymphocyte	1.93e-12	13
common lymphoid progenitor	1.93e-12	13
mature alpha-beta T cell	2.30e-12	9
alpha-beta T cell	2.30e-12	9
immature T cell	2.30e-12	9
mature T cell	2.30e-12	9
immature alpha-beta T cell	2.30e-12	9
T cell	2.70e-12	11
pro-T cell	2.70e-12	11
CD4-positive, alpha-beta T cell	3.96e-11	8
nucleate cell	4.23e-11	16
intestinal epithelial cell	9.49e-11	9
epithelial cell of alimentary canal	9.49e-11	9
somatic stem cell	1.20e-09	91
multi fate stem cell	1.20e-09	91
columnar/cuboidal epithelial cell	1.69e-09	7
common myeloid progenitor	2.67e-09	19
thymocyte	5.71e-09	6
double negative thymocyte	5.71e-09	6
naive T cell	5.71e-09	6
double-positive, alpha-beta thymocyte	5.71e-09	6
CD4-positive, alpha-beta thymocyte	5.71e-09	6
naive thymus-derived CD4-positive, alpha-beta T cell	5.71e-09	6
DN4 thymocyte	5.71e-09	6
DN1 thymic pro-T cell	5.71e-09	6
DN2 thymocyte	5.71e-09	6
DN3 thymocyte	5.71e-09	6
immature single positive thymocyte	5.71e-09	6
early T lineage precursor	5.71e-09	6
mature CD4 single-positive thymocyte	5.71e-09	6
resting double-positive thymocyte	5.71e-09	6
double-positive blast	5.71e-09	6
CD69-positive double-positive thymocyte	5.71e-09	6
CD69-positive, CD4-positive single-positive thymocyte	5.71e-09	6
CD4-positive, CD8-intermediate double-positive thymocyte	5.71e-09	6
CD24-positive, CD4 single-positive thymocyte	5.71e-09	6
brush border epithelial cell	1.23e-08	6
gut absorptive cell	1.23e-08	6
absorptive cell	1.23e-08	6
enterocyte	1.23e-08	6
myeloid cell	4.95e-07	16

Uber Anatomy

Ontology term	p-value	n
connective tissue	1.08e-17	46
mucosa	9.69e-16	15
intestinal mucosa	8.55e-13	13
anatomical wall	8.55e-13	13
wall of intestine	8.55e-13	13
gastrointestinal system mucosa	8.55e-13	13
simple columnar epithelium	2.02e-12	11
epithelium of mucosa	9.49e-11	9
gastrointestinal system epithelium	9.49e-11	9
intestinal epithelium	9.49e-11	9
organ component layer	1.99e-08	24

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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