MCL coexpression mm9:2860

Phase1 CAGE Peaks

	Short description
Mm9::chr13:55313414..55313447,+	p2@Nsd1
Mm9::chr6:86354251..86354313,+	p1@Tia1
Mm9::chr9:56266612..56266654,+	p1@Hmg20a

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:0030331	estrogen receptor binding	0.00810825617706678
GO:0046966	thyroid hormone receptor binding	0.00810825617706678
GO:0046975	histone lysine N-methyltransferase activity (H3-K36 specific)	0.00810825617706678
GO:0016568	chromatin modification	0.00896215672069559
GO:0035258	steroid hormone receptor binding	0.00903808206770178
GO:0042974	retinoic acid receptor binding	0.00903808206770178
GO:0042799	histone lysine N-methyltransferase activity (H4-K20 specific)	0.00903808206770178
GO:0046965	retinoid X receptor binding	0.00903808206770178
GO:0006325	establishment and/or maintenance of chromatin architecture	0.00903808206770178
GO:0017091	AU-rich element binding	0.00903808206770178
GO:0006323	DNA packaging	0.00903808206770178
GO:0031324	negative regulation of cellular metabolic process	0.00933700986064206
GO:0016922	ligand-dependent nuclear receptor binding	0.00935362998129836
GO:0009892	negative regulation of metabolic process	0.0102114007393278
GO:0051276	chromosome organization and biogenesis	0.0114543722633916
GO:0035097	histone methyltransferase complex	0.0114543722633916
GO:0010468	regulation of gene expression	0.0114543722633916
GO:0031323	regulation of cellular metabolic process	0.0122039355836149
GO:0042036	negative regulation of cytokine biosynthetic process	0.0122478024990145
GO:0019222	regulation of metabolic process	0.0122478024990145
GO:0035257	nuclear hormone receptor binding	0.0127345656648945
GO:0051427	hormone receptor binding	0.0132600607150388
GO:0016571	histone methylation	0.0158518140714068
GO:0018024	histone-lysine N-methyltransferase activity	0.0158907178865336
GO:0016278	lysine N-methyltransferase activity	0.0158907178865336
GO:0016279	protein-lysine N-methyltransferase activity	0.0158907178865336
GO:0010467	gene expression	0.0168146204921224
GO:0006259	DNA metabolic process	0.017233100952645
GO:0042054	histone methyltransferase activity	0.0198737457423813
GO:0017148	negative regulation of translation	0.0198737457423813
GO:0031327	negative regulation of cellular biosynthetic process	0.0198737457423813
GO:0006479	protein amino acid methylation	0.0198737457423813
GO:0008213	protein amino acid alkylation	0.0198737457423813
GO:0001702	gastrulation with mouth forming second	0.0210871265304523
GO:0050794	regulation of cellular process	0.0210871265304523
GO:0009890	negative regulation of biosynthetic process	0.0210871265304523
GO:0008170	N-methyltransferase activity	0.0210871265304523
GO:0008276	protein methyltransferase activity	0.0210871265304523
GO:0016570	histone modification	0.0211678896003258
GO:0048523	negative regulation of cellular process	0.0216028946271842
GO:0016569	covalent chromatin modification	0.0219083509771772
GO:0048519	negative regulation of biological process	0.0236369750219196
GO:0043414	biopolymer methylation	0.0236369750219196
GO:0050789	regulation of biological process	0.0236369750219196
GO:0032259	methylation	0.0242661749924914
GO:0042035	regulation of cytokine biosynthetic process	0.026369046303537
GO:0003714	transcription corepressor activity	0.0288954535041561
GO:0065007	biological regulation	0.0289057852480629
GO:0042089	cytokine biosynthetic process	0.0289057852480629
GO:0042107	cytokine metabolic process	0.0289057852480629
GO:0005634	nucleus	0.0289057852480629
GO:0007369	gastrulation	0.0289057852480629
GO:0006996	organelle organization and biogenesis	0.0291273914862101
GO:0051248	negative regulation of protein metabolic process	0.0305188836318489
GO:0008757	S-adenosylmethionine-dependent methyltransferase activity	0.0308419047956447
GO:0006730	one-carbon compound metabolic process	0.0333074784707566
GO:0003682	chromatin binding	0.0412973269226017
GO:0001816	cytokine production	0.0412973269226017

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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