MCL coexpression mm9:807

Phase1 CAGE Peaks

	Short description
Mm9::chr12:4914545..4914560,-	p5@Ubxn2a
Mm9::chr13:105400705..105400716,-	p@chr13:105400705..105400716 -
Mm9::chr13:43364328..43364338,-	p@chr13:43364328..43364338 -
Mm9::chr1:13152564..13152597,-	p@chr1:13152564..13152597 -
Mm9::chr2:127159235..127159246,+	p@chr2:127159235..127159246 +
Mm9::chr2:34819390..34819406,+	p@chr2:34819390..34819406 +
Mm9::chr8:87186907..87186914,-	p3@Ier2
Mm9::chr8:87186926..87186970,-	p2@Ier2
Mm9::chr9:20780356..20780371,+	p@chr9:20780356..20780371 +

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:0030375	thyroid hormone receptor coactivator activity	0.0149012517811746
GO:0030374	ligand-dependent nuclear receptor transcription coactivator activity	0.018625033901764
GO:0035257	nuclear hormone receptor binding	0.0193657897706547
GO:0051427	hormone receptor binding	0.0193657897706547
GO:0030518	steroid hormone receptor signaling pathway	0.0193657897706547
GO:0030522	intracellular receptor-mediated signaling pathway	0.0223420803936546

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	4.63e-30	32
hematopoietic oligopotent progenitor cell	4.63e-30	32
hematopoietic stem cell	4.63e-30	32
angioblastic mesenchymal cell	4.63e-30	32
hematopoietic multipotent progenitor cell	4.63e-30	32
mature alpha-beta T cell	1.08e-29	9
alpha-beta T cell	1.08e-29	9
immature T cell	1.08e-29	9
mature T cell	1.08e-29	9
immature alpha-beta T cell	1.08e-29	9
lymphoid lineage restricted progenitor cell	3.93e-27	12
CD4-positive, alpha-beta T cell	1.32e-26	8
lymphocyte	6.66e-25	13
common lymphoid progenitor	6.66e-25	13
T cell	5.16e-24	11
pro-T cell	5.16e-24	11
connective tissue cell	3.41e-22	46
mesenchymal cell	3.41e-22	46
thymocyte	1.67e-20	6
double negative thymocyte	1.67e-20	6
naive T cell	1.67e-20	6
double-positive, alpha-beta thymocyte	1.67e-20	6
CD4-positive, alpha-beta thymocyte	1.67e-20	6
naive thymus-derived CD4-positive, alpha-beta T cell	1.67e-20	6
DN4 thymocyte	1.67e-20	6
DN1 thymic pro-T cell	1.67e-20	6
DN2 thymocyte	1.67e-20	6
DN3 thymocyte	1.67e-20	6
immature single positive thymocyte	1.67e-20	6
early T lineage precursor	1.67e-20	6
mature CD4 single-positive thymocyte	1.67e-20	6
resting double-positive thymocyte	1.67e-20	6
double-positive blast	1.67e-20	6
CD69-positive double-positive thymocyte	1.67e-20	6
CD69-positive, CD4-positive single-positive thymocyte	1.67e-20	6
CD4-positive, CD8-intermediate double-positive thymocyte	1.67e-20	6
CD24-positive, CD4 single-positive thymocyte	1.67e-20	6
nucleate cell	6.95e-20	16
leukocyte	1.32e-18	17
nongranular leukocyte	1.32e-18	17
motile cell	2.47e-18	54
hematopoietic lineage restricted progenitor cell	3.44e-17	25
stem cell	2.13e-12	97
common myeloid progenitor	1.77e-09	19
somatic stem cell	2.65e-09	91
multi fate stem cell	2.65e-09	91

Uber Anatomy

Ontology term	p-value	n
connective tissue	3.41e-22	46
thymus	6.61e-15	23
neck	6.61e-15	23
respiratory system epithelium	6.61e-15	23
hemolymphoid system gland	6.61e-15	23
pharyngeal epithelium	6.61e-15	23
thymic region	6.61e-15	23
pharyngeal gland	6.61e-15	23
entire pharyngeal arch endoderm	6.61e-15	23
thymus primordium	6.61e-15	23
early pharyngeal endoderm	6.61e-15	23
hematopoietic system	6.92e-15	45
blood island	6.92e-15	45
pharynx	3.36e-14	24
gland of gut	3.36e-14	24
upper respiratory tract	3.36e-14	24
chordate pharynx	3.36e-14	24
pharyngeal arch system	3.36e-14	24
pharyngeal region of foregut	3.36e-14	24
hemolymphoid system	9.36e-14	48
immune system	9.36e-14	48
segment of respiratory tract	2.14e-12	27
hemopoietic organ	2.11e-11	29
immune organ	2.11e-11	29
mixed endoderm/mesoderm-derived structure	6.80e-11	35
organ segment	4.23e-09	35
craniocervical region	8.60e-09	36
respiratory tract	1.78e-07	41
respiratory system	2.98e-07	42
lateral plate mesoderm	3.85e-07	87
anterior region of body	4.89e-07	43

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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