MCL coexpression mm9:1321

Phase1 CAGE Peaks

	Short description
Mm9::chr12:11303982..11303997,+	p@chr12:11303982..11303997 +
Mm9::chr1:6239392..6239410,+	p@chr1:6239392..6239410 +
Mm9::chr1:6239783..6239795,+	p3@Rb1cc1
Mm9::chr1:93397379..93397436,+	p@chr1:93397379..93397436 +
Mm9::chr4:32846086..32846098,+	p@chr4:32846086..32846098 +
Mm9::chr4:83114536..83114556,-	p@chr4:83114536..83114556 -

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:0033238	regulation of amine metabolic process	0.000221879533604898
GO:0001932	regulation of protein amino acid phosphorylation	0.000221879533604898
GO:0006521	regulation of amino acid metabolic process	0.000221879533604898
GO:0042325	regulation of phosphorylation	0.000221879533604898
GO:0051174	regulation of phosphorus metabolic process	0.000221879533604898
GO:0019220	regulation of phosphate metabolic process	0.000221879533604898
GO:0042527	negative regulation of tyrosine phosphorylation of Stat6 protein	0.00175313647071714
GO:0042505	tyrosine phosphorylation of Stat6 protein	0.00175313647071714
GO:0042525	regulation of tyrosine phosphorylation of Stat6 protein	0.00175313647071714
GO:0006520	amino acid metabolic process	0.00187596919008826
GO:0007243	protein kinase cascade	0.00187596919008826
GO:0050732	negative regulation of peptidyl-tyrosine phosphorylation	0.00242735323132255
GO:0042532	negative regulation of tyrosine phosphorylation of STAT protein	0.00242735323132255
GO:0006519	amino acid and derivative metabolic process	0.00244649972197393
GO:0009308	amine metabolic process	0.00262956062845648
GO:0046426	negative regulation of JAK-STAT cascade	0.00262956062845648
GO:0042326	negative regulation of phosphorylation	0.00262956062845648
GO:0045936	negative regulation of phosphate metabolic process	0.00262956062845648
GO:0006807	nitrogen compound metabolic process	0.002826711892783
GO:0045793	positive regulation of cell size	0.00393441923390635
GO:0019752	carboxylic acid metabolic process	0.00393441923390635
GO:0006082	organic acid metabolic process	0.00393441923390635
GO:0033239	negative regulation of amine metabolic process	0.00441717775500631
GO:0001933	negative regulation of protein amino acid phosphorylation	0.00441717775500631
GO:0045763	negative regulation of amino acid metabolic process	0.00441717775500631
GO:0042509	regulation of tyrosine phosphorylation of STAT protein	0.00546049743701293
GO:0006468	protein amino acid phosphorylation	0.00560096942145836
GO:0051101	regulation of DNA binding	0.00563369219311972
GO:0016310	phosphorylation	0.00630938947000794
GO:0007260	tyrosine phosphorylation of STAT protein	0.00630938947000794
GO:0046425	regulation of JAK-STAT cascade	0.006614501249939
GO:0006793	phosphorus metabolic process	0.00799947757455269
GO:0006796	phosphate metabolic process	0.00799947757455269
GO:0048523	negative regulation of cellular process	0.00849599447586067
GO:0051098	regulation of binding	0.00901143760694771
GO:0001889	liver development	0.00901569985682606
GO:0048519	negative regulation of biological process	0.00901569985682606
GO:0007242	intracellular signaling cascade	0.0101359222599567
GO:0001934	positive regulation of protein amino acid phosphorylation	0.0101359222599567
GO:0033240	positive regulation of amine metabolic process	0.0101359222599567
GO:0007259	JAK-STAT cascade	0.0101359222599567
GO:0045764	positive regulation of amino acid metabolic process	0.0101359222599567
GO:0050730	regulation of peptidyl-tyrosine phosphorylation	0.0124645301110032
GO:0043687	post-translational protein modification	0.0150596267028128
GO:0007254	JNK cascade	0.0150596267028128
GO:0031098	stress-activated protein kinase signaling pathway	0.0154234846140748
GO:0008017	microtubule binding	0.0154234846140748
GO:0015631	tubulin binding	0.017440087297816
GO:0018212	peptidyl-tyrosine modification	0.017440087297816
GO:0018108	peptidyl-tyrosine phosphorylation	0.017440087297816
GO:0006464	protein modification process	0.017440087297816
GO:0043412	biopolymer modification	0.0184414642376809
GO:0051248	negative regulation of protein metabolic process	0.0202066088147045
GO:0006355	regulation of transcription, DNA-dependent	0.0251870882483209
GO:0009968	negative regulation of signal transduction	0.0251870882483209
GO:0006351	transcription, DNA-dependent	0.0251870882483209
GO:0032774	RNA biosynthetic process	0.0251870882483209
GO:0018193	peptidyl-amino acid modification	0.0252358110631036
GO:0045449	regulation of transcription	0.0257142066931188
GO:0019219	regulation of nucleobase, nucleoside, nucleotide and nucleic acid metabolic process	0.0262942375471823
GO:0006350	transcription	0.0265444826573129
GO:0008361	regulation of cell size	0.0271510973585305
GO:0010468	regulation of gene expression	0.0274570777206803
GO:0045786	negative regulation of progression through cell cycle	0.0284016674325537
GO:0000165	MAPKKK cascade	0.0284016674325537
GO:0031323	regulation of cellular metabolic process	0.0284016674325537
GO:0019222	regulation of metabolic process	0.0300849551907664
GO:0016070	RNA metabolic process	0.0312280103520023
GO:0000122	negative regulation of transcription from RNA polymerase II promoter	0.0318918942274392
GO:0043066	negative regulation of apoptosis	0.0334186252039201
GO:0043069	negative regulation of programmed cell death	0.0334186252039201
GO:0007507	heart development	0.0370816770860599
GO:0000074	regulation of progression through cell cycle	0.0382863931188363
GO:0044267	cellular protein metabolic process	0.0391399300928187
GO:0045892	negative regulation of transcription, DNA-dependent	0.0391399300928187
GO:0044260	cellular macromolecule metabolic process	0.0394946093735333
GO:0010467	gene expression	0.0394946093735333
GO:0019538	protein metabolic process	0.040802127873492
GO:0051246	regulation of protein metabolic process	0.0456484403768468
GO:0006139	nucleobase, nucleoside, nucleotide and nucleic acid metabolic process	0.0460597258482257
GO:0016481	negative regulation of transcription	0.0460597258482257
GO:0045934	negative regulation of nucleobase, nucleoside, nucleotide and nucleic acid metabolic process	0.0487250302207857

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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