MCL coexpression mm9:1129

Phase1 CAGE Peaks

	Short description
Mm9::chr14:122230170..122230176,+	p@chr14:122230170..122230176 +
Mm9::chr14:48189081..48189085,+	p1@Gm6616
Mm9::chr18:75160143..75160153,+	p4@Gm10294 p4@Rpl17
Mm9::chr19:37858699..37858749,+	p@chr19:37858699..37858749 +
Mm9::chr1:39424719..39424730,+	p3@Gm10191 p3@Gm13004 p3@Gm7689 p3@Gm8759 p3@LOC100505081 p3@LOC638399 p3@Rpl31
Mm9::chr7:58713316..58713326,+	p1@ENSMUST00000077381
Mm9::chr9:57181873..57181884,+	p1@Gm5121

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:0003735	structural constituent of ribosome	0.00114928015399592
GO:0005840	ribosome	0.00114928015399592
GO:0006412	translation	0.00426107607803767
GO:0030529	ribonucleoprotein complex	0.00426107607803767
GO:0009059	macromolecule biosynthetic process	0.00711973963157119
GO:0044249	cellular biosynthetic process	0.010248901411155
GO:0015934	large ribosomal subunit	0.0140788124567925
GO:0009058	biosynthetic process	0.0140788124567925
GO:0043228	non-membrane-bound organelle	0.0178799545036496
GO:0043232	intracellular non-membrane-bound organelle	0.0178799545036496
GO:0033279	ribosomal subunit	0.0178799545036496
GO:0032991	macromolecular complex	0.0279377444569467
GO:0044267	cellular protein metabolic process	0.0400583390841314
GO:0044260	cellular macromolecule metabolic process	0.0400583390841314
GO:0010467	gene expression	0.0400583390841314
GO:0019538	protein metabolic process	0.0400583390841314
GO:0044444	cytoplasmic part	0.0478671182542338

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	1.61e-22	32
hematopoietic oligopotent progenitor cell	1.61e-22	32
hematopoietic stem cell	1.61e-22	32
angioblastic mesenchymal cell	1.61e-22	32
hematopoietic multipotent progenitor cell	1.61e-22	32
somatic cell	2.54e-21	118
motile cell	3.14e-20	54
connective tissue cell	7.19e-20	46
mesenchymal cell	7.19e-20	46
animal cell	7.71e-20	115
eukaryotic cell	7.71e-20	115
hematopoietic lineage restricted progenitor cell	6.30e-18	25
stem cell	2.49e-15	97
lymphoid lineage restricted progenitor cell	3.18e-13	12
leukocyte	1.94e-12	17
nongranular leukocyte	1.94e-12	17
mature alpha-beta T cell	3.07e-12	9
alpha-beta T cell	3.07e-12	9
immature T cell	3.07e-12	9
mature T cell	3.07e-12	9
immature alpha-beta T cell	3.07e-12	9
T cell	3.50e-12	11
pro-T cell	3.50e-12	11
lymphocyte	5.37e-12	13
common lymphoid progenitor	5.37e-12	13
common myeloid progenitor	1.13e-11	19
nucleate cell	3.07e-11	16
CD4-positive, alpha-beta T cell	3.37e-11	8
somatic stem cell	1.10e-10	91
multi fate stem cell	1.10e-10	91
epithelial cell	2.73e-09	25
thymocyte	3.82e-09	6
double negative thymocyte	3.82e-09	6
naive T cell	3.82e-09	6
double-positive, alpha-beta thymocyte	3.82e-09	6
CD4-positive, alpha-beta thymocyte	3.82e-09	6
naive thymus-derived CD4-positive, alpha-beta T cell	3.82e-09	6
DN4 thymocyte	3.82e-09	6
DN1 thymic pro-T cell	3.82e-09	6
DN2 thymocyte	3.82e-09	6
DN3 thymocyte	3.82e-09	6
immature single positive thymocyte	3.82e-09	6
early T lineage precursor	3.82e-09	6
mature CD4 single-positive thymocyte	3.82e-09	6
resting double-positive thymocyte	3.82e-09	6
double-positive blast	3.82e-09	6
CD69-positive double-positive thymocyte	3.82e-09	6
CD69-positive, CD4-positive single-positive thymocyte	3.82e-09	6
CD4-positive, CD8-intermediate double-positive thymocyte	3.82e-09	6
CD24-positive, CD4 single-positive thymocyte	3.82e-09	6
myeloid cell	3.08e-08	16
endo-epithelial cell	6.35e-08	15

Uber Anatomy

Ontology term	p-value	n
connective tissue	7.19e-20	46
mucosa	2.61e-11	15
intestinal mucosa	7.57e-09	13
anatomical wall	7.57e-09	13
wall of intestine	7.57e-09	13
gastrointestinal system mucosa	7.57e-09	13
simple columnar epithelium	4.94e-08	11

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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