MCL coexpression mm9:1016

Phase1 CAGE Peaks

	Short description
Mm9::chr10:128328730..128328771,-	p1@Gdf11
Mm9::chr11:102680428..102680528,-	p1@Gjc1
Mm9::chr14:52604501..52604531,+	p2@Arhgef40
Mm9::chr17:28314586..28314627,-	p@chr17:28314586..28314627 -
Mm9::chr2:58419568..58419699,-	p1@Acvr1
Mm9::chr9:56842884..56842924,+	p2@Ptpn9
Mm9::chrX:147481455..147481476,+	p2@Fgd1

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:0009653	anatomical structure morphogenesis	0.00296909382281702
GO:0009887	organ morphogenesis	0.00646380487127128
GO:0001655	urogenital system development	0.00646380487127128
GO:0048856	anatomical structure development	0.00646380487127128
GO:0050431	transforming growth factor beta binding	0.00959842217717636
GO:0016361	activin receptor activity, type I	0.0121739696266195
GO:0017002	activin receptor activity	0.0121739696266195
GO:0007507	heart development	0.0121739696266195
GO:0048514	blood vessel morphogenesis	0.0121739696266195
GO:0032502	developmental process	0.0121739696266195
GO:0005025	transforming growth factor beta receptor activity, type I	0.0126221882574342
GO:0001568	blood vessel development	0.0126221882574342
GO:0001944	vasculature development	0.0126221882574342
GO:0048468	cell development	0.0127947411668825
GO:0060037	pharyngeal system development	0.0127947411668825
GO:0050793	regulation of developmental process	0.0157949769515772
GO:0048185	activin binding	0.0169314328740094
GO:0048513	organ development	0.017489293322562
GO:0051145	smooth muscle cell differentiation	0.0215822546795309
GO:0048738	cardiac muscle development	0.0215822546795309
GO:0004675	transmembrane receptor protein serine/threonine kinase activity	0.0239763413012367
GO:0005024	transforming growth factor beta receptor activity	0.0239763413012367
GO:0048731	system development	0.0242921967687915
GO:0031016	pancreas development	0.0242921967687915
GO:0048869	cellular developmental process	0.0242921967687915
GO:0030154	cell differentiation	0.0242921967687915
GO:0048593	camera-type eye morphogenesis	0.0287550599656491
GO:0022829	wide pore channel activity	0.0287550599656491
GO:0005243	gap junction channel activity	0.0287550599656491
GO:0005922	connexon complex	0.0287550599656491
GO:0001569	patterning of blood vessels	0.0340001801508854
GO:0001755	neural crest cell migration	0.0340268617337679
GO:0001707	mesoderm formation	0.0340268617337679
GO:0048332	mesoderm morphogenesis	0.0340268617337679
GO:0005921	gap junction	0.0340268617337679
GO:0007275	multicellular organismal development	0.0340268617337679
GO:0001704	formation of primary germ layer	0.0340268617337679
GO:0007281	germ cell development	0.0340268617337679
GO:0001570	vasculogenesis	0.0356044036869571
GO:0001702	gastrulation with mouth forming second	0.0356241688914495
GO:0014032	neural crest cell development	0.0356241688914495
GO:0014033	neural crest cell differentiation	0.0356241688914495
GO:0001657	ureteric bud development	0.0356241688914495
GO:0007368	determination of left/right symmetry	0.0356390644170355
GO:0001726	ruffle	0.0356390644170355
GO:0009799	determination of symmetry	0.0356390644170355
GO:0009855	determination of bilateral symmetry	0.0356390644170355
GO:0048762	mesenchymal cell differentiation	0.0380786740322516
GO:0014031	mesenchymal cell development	0.0380786740322516
GO:0009880	embryonic pattern specification	0.0382708027366175
GO:0048592	eye morphogenesis	0.0383992257020482
GO:0014704	intercalated disc	0.0383992257020482
GO:0001656	metanephros development	0.0383992257020482
GO:0007179	transforming growth factor beta receptor signaling pathway	0.0383992257020482
GO:0004702	receptor signaling protein serine/threonine kinase activity	0.0383992257020482
GO:0022603	regulation of anatomical structure morphogenesis	0.0383992257020482
GO:0022604	regulation of cell morphogenesis	0.0383992257020482
GO:0008360	regulation of cell shape	0.0383992257020482
GO:0019838	growth factor binding	0.0383992257020482
GO:0007498	mesoderm development	0.0383992257020482
GO:0030027	lamellipodium	0.0383992257020482
GO:0005089	Rho guanyl-nucleotide exchange factor activity	0.040850517821372
GO:0035023	regulation of Rho protein signal transduction	0.042467210308323
GO:0048754	branching morphogenesis of a tube	0.0432895282359754
GO:0005088	Ras guanyl-nucleotide exchange factor activity	0.043354858875854
GO:0007369	gastrulation	0.0442372284256234
GO:0001763	morphogenesis of a branching structure	0.0442372284256234
GO:0042692	muscle cell differentiation	0.0442372284256234
GO:0019955	cytokine binding	0.0463488678699826
GO:0001822	kidney development	0.047693177764072
GO:0019199	transmembrane receptor protein kinase activity	0.047693177764072
GO:0048469	cell maturation	0.047693177764072
GO:0048729	tissue morphogenesis	0.047693177764072
GO:0043010	camera-type eye development	0.047693177764072
GO:0031252	leading edge	0.047693177764072
GO:0002526	acute inflammatory response	0.047693177764072
GO:0045177	apical part of cell	0.047693177764072
GO:0007178	transmembrane receptor protein serine/threonine kinase signaling pathway	0.0482849740211149
GO:0007266	Rho protein signal transduction	0.0482849740211149

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>disease_data<br>

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Cell Type

Ontology term	p-value	n

Uber Anatomy

Ontology term	p-value	n

Disease

Ontology term	p-value	n

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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