MCL coexpression mm9:406

Phase1 CAGE Peaks

	Short description
Mm9::chr13:23461025..23461086,-	p1@Zfp322a
Mm9::chr13:62568154..62568199,-	p1@Zfp935
Mm9::chr13:65380118..65380146,+	p2@Zfp369
Mm9::chr13:67784412..67784499,-	p1@Zfp738
Mm9::chr14:99499095..99499181,+	p1@Pibf1
Mm9::chr17:33130068..33130105,+	p1@Zfp952
Mm9::chr2:48804726..48804776,-	p1@Orc4
Mm9::chr3:157699530..157699593,-	p1@Srsf11
Mm9::chr4:11413149..11413192,+	p1@1110037F02Rik
Mm9::chr4:21775186..21775224,+	p1@Sfrs18
Mm9::chr4:94645754..94645797,-	p1@LOC100047941 p1@Mysm1
Mm9::chr6:83864348..83864405,+	p1@Zfml
Mm9::chr7:30691106..30691156,-	p1@Zfp27
Mm9::chr7:30880169..30880211,+	p1@Zfp260
Mm9::chr7:48854639..48854688,+	p1@ENSMUST00000163475 p1@uc009gls.1
Mm9::chr9:122775056..122775117,-	p1@Zfp445
Mm9::chr9:20297167..20297209,-	p1@Zfp426
Mm9::chr9:55785900..55785950,-	p1@Scaper
Mm9::chrX:98835395..98835447,+	p1@Ogt

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:0005634	nucleus	3.45512636877602e-05
GO:0006139	nucleobase, nucleoside, nucleotide and nucleic acid metabolic process	0.000287029891563448
GO:0043283	biopolymer metabolic process	0.000287029891563448
GO:0016070	RNA metabolic process	0.000287029891563448
GO:0006355	regulation of transcription, DNA-dependent	0.000349703559414333
GO:0006351	transcription, DNA-dependent	0.000349703559414333
GO:0032774	RNA biosynthetic process	0.000349703559414333
GO:0008270	zinc ion binding	0.000349703559414333
GO:0003677	DNA binding	0.000349703559414333
GO:0010467	gene expression	0.000349703559414333
GO:0043231	intracellular membrane-bound organelle	0.000349703559414333
GO:0043227	membrane-bound organelle	0.000349703559414333
GO:0045449	regulation of transcription	0.000349703559414333
GO:0019219	regulation of nucleobase, nucleoside, nucleotide and nucleic acid metabolic process	0.000349703559414333
GO:0003676	nucleic acid binding	0.000349703559414333
GO:0006350	transcription	0.000355963929181929
GO:0010468	regulation of gene expression	0.000415150928952499
GO:0031323	regulation of cellular metabolic process	0.000508473101529681
GO:0019222	regulation of metabolic process	0.000608756592777363
GO:0043170	macromolecule metabolic process	0.000620267738738099
GO:0046914	transition metal ion binding	0.000727247919754376
GO:0043229	intracellular organelle	0.000727247919754376
GO:0043226	organelle	0.000727247919754376
GO:0044238	primary metabolic process	0.00192007151275379
GO:0044237	cellular metabolic process	0.00192007151275379
GO:0050794	regulation of cellular process	0.00466918507919814
GO:0043169	cation binding	0.00466918507919814
GO:0046872	metal ion binding	0.00741762827626488
GO:0050789	regulation of biological process	0.00783381148010031
GO:0043167	ion binding	0.00783381148010031
GO:0044424	intracellular part	0.0101007571677885
GO:0065007	biological regulation	0.0130601798390135
GO:0005622	intracellular	0.0136314345171783
GO:0006493	protein amino acid O-linked glycosylation	0.0210324475581384

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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