MCL coexpression mm9:3341

Phase1 CAGE Peaks

	Short description
Mm9::chr2:27532754..27532815,+	p1@Rxra
Mm9::chr4:59015993..59016087,+	p1@Dnajc25
Mm9::chr7:35904304..35904320,+	p1@Cebpa

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:0055010	ventricular cardiac muscle morphogenesis	0.0126591132027072
GO:0043565	sequence-specific DNA binding	0.0126591132027072
GO:0008283	cell proliferation	0.0126591132027072
GO:0055008	cardiac muscle morphogensis	0.0126591132027072
GO:0055012	ventricular cardiac muscle cell differentiation	0.0126591132027072
GO:0009887	organ morphogenesis	0.0126591132027072
GO:0048644	muscle morphogenesis	0.0126591132027072
GO:0014855	striated muscle cell proliferation	0.0126591132027072
GO:0060038	cardiac muscle cell proliferation	0.0126591132027072
GO:0030225	macrophage differentiation	0.0128170009285442
GO:0055007	cardiac muscle cell differentiation	0.0129461108478256
GO:0001892	embryonic placenta development	0.0130536374121903
GO:0033002	muscle cell proliferation	0.0142387708815145
GO:0016439	tRNA-pseudouridine synthase activity	0.0142387708815145
GO:0035051	cardiac cell differentiation	0.0142387708815145
GO:0003700	transcription factor activity	0.0150751061479676
GO:0009982	pseudouridine synthase activity	0.0150751061479676
GO:0001889	liver development	0.0166091678902358
GO:0045444	fat cell differentiation	0.0172326279786625
GO:0001890	placenta development	0.0187620877370507
GO:0051146	striated muscle cell differentiation	0.0187620877370507
GO:0016866	intramolecular transferase activity	0.0187620877370507
GO:0009653	anatomical structure morphogenesis	0.0208469300387484
GO:0002573	myeloid leukocyte differentiation	0.0235463072181457
GO:0019221	cytokine and chemokine mediated signaling pathway	0.0235463072181457
GO:0005496	steroid binding	0.0235463072181457
GO:0003707	steroid hormone receptor activity	0.0235463072181457
GO:0048513	organ development	0.0235463072181457
GO:0004879	ligand-dependent nuclear receptor activity	0.0235463072181457
GO:0042692	muscle cell differentiation	0.0288678229290731
GO:0030324	lung development	0.0288678229290731
GO:0030323	respiratory tube development	0.0288678229290731
GO:0007005	mitochondrion organization and biogenesis	0.0288678229290731
GO:0048731	system development	0.02964176031617
GO:0048469	cell maturation	0.02964176031617
GO:0048869	cellular developmental process	0.02964176031617
GO:0030154	cell differentiation	0.02964176031617
GO:0006355	regulation of transcription, DNA-dependent	0.0304539565209044
GO:0006351	transcription, DNA-dependent	0.0304539565209044
GO:0021700	developmental maturation	0.0304539565209044
GO:0032774	RNA biosynthetic process	0.0304539565209044
GO:0030099	myeloid cell differentiation	0.0304539565209044
GO:0003677	DNA binding	0.0304539565209044
GO:0045449	regulation of transcription	0.0304539565209044
GO:0048856	anatomical structure development	0.0304539565209044
GO:0019219	regulation of nucleobase, nucleoside, nucleotide and nucleic acid metabolic process	0.0304539565209044
GO:0042803	protein homodimerization activity	0.0304539565209044
GO:0006350	transcription	0.0304539565209044
GO:0010468	regulation of gene expression	0.0318698223543611
GO:0008285	negative regulation of cell proliferation	0.0324950346864553
GO:0001701	in utero embryonic development	0.0324950346864553
GO:0031323	regulation of cellular metabolic process	0.0324950346864553
GO:0014706	striated muscle development	0.0324950346864553
GO:0007275	multicellular organismal development	0.0324950346864553
GO:0002521	leukocyte differentiation	0.0324950346864553
GO:0019222	regulation of metabolic process	0.0324950346864553
GO:0016070	RNA metabolic process	0.033632506275792
GO:0016853	isomerase activity	0.0371753006275059
GO:0007517	muscle development	0.0398958467286218
GO:0007507	heart development	0.0399759238503913
GO:0042802	identical protein binding	0.0399759238503913
GO:0010467	gene expression	0.0436288842760839
GO:0045944	positive regulation of transcription from RNA polymerase II promoter	0.0436288842760839
GO:0046983	protein dimerization activity	0.0436288842760839
GO:0035295	tube development	0.0436288842760839
GO:0003676	nucleic acid binding	0.0436288842760839
GO:0030097	hemopoiesis	0.0439701454378248
GO:0032502	developmental process	0.0451014840833114
GO:0043009	chordate embryonic development	0.0453030942265587
GO:0009792	embryonic development ending in birth or egg hatching	0.0453030942265587
GO:0048534	hemopoietic or lymphoid organ development	0.0458109790184307
GO:0045893	positive regulation of transcription, DNA-dependent	0.0458109790184307
GO:0006139	nucleobase, nucleoside, nucleotide and nucleic acid metabolic process	0.0458109790184307
GO:0002520	immune system development	0.0476042967688176

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><br>uberon_data<br><br>

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Uber Anatomy

Ontology term	p-value	n
exocrine gland	5.54e-10	25
exocrine system	5.54e-10	25
digestive tract diverticulum	5.53e-09	23
sac	5.53e-09	23
liver	5.81e-09	22
epithelial sac	5.81e-09	22
digestive gland	5.81e-09	22
epithelium of foregut-midgut junction	5.81e-09	22
anatomical boundary	5.81e-09	22
hepatobiliary system	5.81e-09	22
foregut-midgut junction	5.81e-09	22
hepatic diverticulum	5.81e-09	22
liver primordium	5.81e-09	22
septum transversum	5.81e-09	22
liver bud	5.81e-09	22

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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