MCL coexpression mm9:1300

Phase1 CAGE Peaks

	Short description
Mm9::chr11:70272480..70272491,+	p9@Zmynd15
Mm9::chr15:44258946..44258959,+	p@chr15:44258946..44258959 +
Mm9::chr16:45455027..45455039,-	p4@Gm17783 p4@Gm609
Mm9::chr18:20714918..20714920,+	p@chr18:20714918..20714920 +
Mm9::chr2:133377954..133377973,+	p1@Bmp2
Mm9::chr4:115500720..115500735,+	p2@Mob3c

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:0048711	positive regulation of astrocyte differentiation	0.00878367895802332
GO:0048710	regulation of astrocyte differentiation	0.00878367895802332
GO:0014015	positive regulation of gliogenesis	0.00878367895802332
GO:0045687	positive regulation of glial cell differentiation	0.00878367895802332
GO:0045778	positive regulation of ossification	0.00878367895802332
GO:0048708	astrocyte differentiation	0.00878367895802332
GO:0046852	positive regulation of bone remodeling	0.00878367895802332
GO:0045669	positive regulation of osteoblast differentiation	0.00878367895802332
GO:0001837	epithelial to mesenchymal transition	0.00878367895802332
GO:0045685	regulation of glial cell differentiation	0.00878367895802332
GO:0014013	regulation of gliogenesis	0.00878367895802332
GO:0045667	regulation of osteoblast differentiation	0.0107347251399441
GO:0035051	cardiac cell differentiation	0.0123852030744534
GO:0001658	ureteric bud branching	0.0137995202431396
GO:0030278	regulation of ossification	0.0160967928574096
GO:0030282	bone mineralization	0.0160967928574096
GO:0001649	osteoblast differentiation	0.0163769478384945
GO:0030509	BMP signaling pathway	0.0163769478384945
GO:0046850	regulation of bone remodeling	0.0163769478384945
GO:0001657	ureteric bud development	0.0167337812634476
GO:0042475	odontogenesis of dentine-containing teeth	0.0167337812634476
GO:0042476	odontogenesis	0.0167337812634476
GO:0010001	glial cell differentiation	0.0167337812634476
GO:0048762	mesenchymal cell differentiation	0.0167337812634476
GO:0014031	mesenchymal cell development	0.0167337812634476
GO:0042063	gliogenesis	0.0169143837043772
GO:0001656	metanephros development	0.0170116307788382
GO:0045597	positive regulation of cell differentiation	0.0170116307788382
GO:0007179	transforming growth factor beta receptor signaling pathway	0.0170116307788382
GO:0051216	cartilage development	0.0171586166958898
GO:0048754	branching morphogenesis of a tube	0.0200590078487712
GO:0001763	morphogenesis of a branching structure	0.0211044547701272
GO:0051094	positive regulation of developmental process	0.0224102760419235
GO:0001822	kidney development	0.0230095602216914
GO:0001655	urogenital system development	0.0235135084794501
GO:0007178	transmembrane receptor protein serine/threonine kinase signaling pathway	0.0235135084794501
GO:0001503	ossification	0.02649465235916
GO:0031214	biomineral formation	0.02649465235916
GO:0045165	cell fate commitment	0.0274585620368124
GO:0046849	bone remodeling	0.0275729885512682
GO:0051240	positive regulation of multicellular organismal process	0.0300718626747224
GO:0008285	negative regulation of cell proliferation	0.0300718626747224
GO:0048771	tissue remodeling	0.0301167926939151
GO:0035239	tube morphogenesis	0.0354104308655744
GO:0008083	growth factor activity	0.0354104308655744
GO:0045595	regulation of cell differentiation	0.0355666753409223
GO:0007507	heart development	0.0386596207918497
GO:0001501	skeletal development	0.0400698994370635
GO:0035295	tube development	0.0438062238145681
GO:0006954	inflammatory response	0.0444166115299627
GO:0005125	cytokine activity	0.0447944175979461
GO:0007417	central nervous system development	0.0474007754684157

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
brush border epithelial cell	4.95e-10	6
gut absorptive cell	4.95e-10	6
absorptive cell	4.95e-10	6
enterocyte	4.95e-10	6
intestinal epithelial cell	2.03e-08	9
epithelial cell of alimentary canal	2.03e-08	9
columnar/cuboidal epithelial cell	2.03e-08	7

Uber Anatomy

Ontology term	p-value	n
intestine	1.22e-24	31
gastrointestinal system	8.72e-19	47
mucosa	4.09e-16	15
intestinal mucosa	2.13e-13	13
anatomical wall	2.13e-13	13
wall of intestine	2.13e-13	13
gastrointestinal system mucosa	2.13e-13	13
organ component layer	6.20e-13	24
endoderm-derived structure	1.87e-11	118
endoderm	1.87e-11	118
presumptive endoderm	1.87e-11	118
digestive system	5.42e-11	116
digestive tract	5.42e-11	116
primitive gut	5.42e-11	116
subdivision of digestive tract	1.40e-09	114
epithelium of mucosa	2.03e-08	9
gastrointestinal system epithelium	2.03e-08	9
intestinal epithelium	2.03e-08	9

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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