MCL coexpression mm9:404

Phase1 CAGE Peaks

	Short description
Mm9::chr13:103483602..103483666,+	p1@Cd180
Mm9::chr15:74787548..74787574,+	p@chr15:74787548..74787574 +
Mm9::chr15:74787580..74787590,+	p@chr15:74787580..74787590 +
Mm9::chr17:37407159..37407194,+	p1@H2-M3
Mm9::chr17:47906140..47906150,+	p6@Tfeb
Mm9::chr19:12873064..12873079,+	p1@Lpxn
Mm9::chr2:156955718..156955728,-	p6@Samhd1
Mm9::chr2:163471573..163471583,-	p@chr2:163471573..163471583 -
Mm9::chr2:61425777..61425781,+	p@chr2:61425777..61425781 +
Mm9::chr3:145812822..145812832,+	p3@Mcoln2
Mm9::chr4:43467472..43467507,-	p1@Cd72 p1@LOC100504743
Mm9::chr6:129573858..129573884,-	p2@Klrk1
Mm9::chr6:29476741..29476752,+	p4@Irf5
Mm9::chr7:52391761..52391821,-	p2@Flt3l p2@Rpl13a
Mm9::chr9:106124929..106124960,+	p1@Tlr9
Mm9::chr9:106124969..106124997,+	p2@Tlr9
Mm9::chr9:37063208..37063220,-	p7@Slc37a2
Mm9::chr9:37063231..37063250,-	p6@Slc37a2
Mm9::chr9:45077218..45077239,-	p1@Il10ra

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:0045087	innate immune response	0.00662029788576228
GO:0002376	immune system process	0.00982787891518943
GO:0006955	immune response	0.0138557547202701
GO:0015794	glycerol-3-phosphate transport	0.0138557547202701
GO:0015168	glycerol transmembrane transporter activity	0.0138557547202701
GO:0015665	alcohol transmembrane transporter activity	0.0138557547202701
GO:0015793	glycerol transport	0.0138557547202701
GO:0015169	glycerol-3-phosphate transmembrane transporter activity	0.0138557547202701
GO:0015166	polyol transmembrane transporter activity	0.0138557547202701
GO:0006127	glycerophosphate shuttle	0.0138557547202701
GO:0032394	MHC class Ib receptor activity	0.0138557547202701
GO:0006952	defense response	0.017404129739248
GO:0002223	stimulatory C-type lectin receptor signaling pathway	0.0217661712758409
GO:0015791	polyol transport	0.0217661712758409
GO:0002220	innate immune response activating cell surface receptor signaling pathway	0.0406034808888695

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	2.78e-10	32
hematopoietic oligopotent progenitor cell	2.78e-10	32
hematopoietic stem cell	2.78e-10	32
angioblastic mesenchymal cell	2.78e-10	32
hematopoietic multipotent progenitor cell	2.78e-10	32
common myeloid progenitor	1.78e-09	19
connective tissue cell	7.47e-08	46
mesenchymal cell	7.47e-08	46
myeloid cell	1.41e-07	16
hematopoietic lineage restricted progenitor cell	1.46e-07	25

Uber Anatomy

Ontology term	p-value	n
hemolymphoid system	8.50e-20	48
immune system	8.50e-20	48
hematopoietic system	1.10e-17	45
blood island	1.10e-17	45
bone marrow	2.78e-12	16
bone element	2.16e-11	22
skeletal element	2.16e-11	22
skeletal system	2.16e-11	22
lateral plate mesoderm	4.61e-11	87
mesoderm	7.22e-10	120
mesoderm-derived structure	7.22e-10	120
presumptive mesoderm	7.22e-10	120
musculoskeletal system	7.58e-09	32
connective tissue	7.47e-08	46
mixed endoderm/mesoderm-derived structure	1.49e-07	35
hemopoietic organ	1.53e-07	29
immune organ	1.53e-07	29
foregut	5.40e-07	80

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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