MCL coexpression mm9:605

Phase1 CAGE Peaks

	Short description
Mm9::chr11:70783455..70783480,-	p1@Nup88
Mm9::chr11:93747451..93747468,+	p4@Mbtd1
Mm9::chr11:97048962..97048994,-	p5@Kpnb1
Mm9::chr13:21454695..21454752,+	p1@Zscan12
Mm9::chr15:98957049..98957071,+	p4@Spats2
Mm9::chr3:103083772..103083796,+	p@chr3:103083772..103083796 +
Mm9::chr5:138558139..138558214,+	p1@Zscan21
Mm9::chr5:145965392..145965443,+	p1@Zkscan5
Mm9::chr7:135019439..135019462,+	p@chr7:135019439..135019462 +
Mm9::chr7:54051401..54051455,-	p2@Hps5
Mm9::chr9:122832168..122832210,+	p1@Zfp105
Mm9::chrX:109714433..109714444,+	p2@Zfp711

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:0008270	zinc ion binding	0.0101926500573792
GO:0005643	nuclear pore	0.0101926500573792
GO:0046930	pore complex	0.0101926500573792
GO:0044453	nuclear membrane part	0.0101926500573792
GO:0046914	transition metal ion binding	0.0101926500573792
GO:0031965	nuclear membrane	0.0101926500573792
GO:0003676	nucleic acid binding	0.0154739663567033
GO:0005634	nucleus	0.0154739663567033
GO:0005635	nuclear envelope	0.0154739663567033
GO:0006355	regulation of transcription, DNA-dependent	0.0154739663567033
GO:0006351	transcription, DNA-dependent	0.0154739663567033
GO:0032774	RNA biosynthetic process	0.0154739663567033
GO:0003677	DNA binding	0.0154739663567033
GO:0045449	regulation of transcription	0.0154739663567033
GO:0019219	regulation of nucleobase, nucleoside, nucleotide and nucleic acid metabolic process	0.0156932195626997
GO:0006350	transcription	0.0156932195626997
GO:0010468	regulation of gene expression	0.0171464204925708
GO:0006610	ribosomal protein import into nucleus	0.0174735340687904
GO:0031323	regulation of cellular metabolic process	0.0174735340687904
GO:0043169	cation binding	0.0174735340687904
GO:0019222	regulation of metabolic process	0.0195620152981443
GO:0016070	RNA metabolic process	0.0209717005586246
GO:0046872	metal ion binding	0.0234416485775474
GO:0043167	ion binding	0.0250128630190543
GO:0003700	transcription factor activity	0.0371678022108795
GO:0000059	protein import into nucleus, docking	0.0371678022108795
GO:0010467	gene expression	0.0375873581488371
GO:0012505	endomembrane system	0.0441447714819657
GO:0048477	oogenesis	0.046583082755119

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
multi-cellular organism	2.37e-08	333
gonad	1.28e-07	18
gonad primordium	1.28e-07	18
external genitalia	4.18e-07	17
indifferent external genitalia	4.18e-07	17
indifferent gonad	4.18e-07	17
embryo	4.73e-07	320

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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