MCL coexpression mm9:327

Phase1 CAGE Peaks

	Short description
Mm9::chr10:23506949..23506966,-	p4@Gm10279 p4@Gm14059 p4@Gm14958 p4@Gm5642 p4@Gm6646 p4@Gm7643 p4@Gm7671 p4@Gm7698 p4@Gm7711 p4@Rps12
Mm9::chr10:84085110..84085155,+	p1@Polr3b
Mm9::chr13:108948917..108948948,+	p1@Ercc8
Mm9::chr16:87496052..87496065,-	p2@Cct8
Mm9::chr16:90810610..90810674,-	p1@Urb1
Mm9::chr17:71202822..71202877,-	p3@Tgif1
Mm9::chr19:47125313..47125405,-	p1@Pcgf6
Mm9::chr19:8831589..8831616,+	p2@Nxf1
Mm9::chr1:88256056..88256061,-	p2@Ncl
Mm9::chr2:114001010..114001029,-	p3@Aqr
Mm9::chr3:127256128..127256143,-	p2@Larp7
Mm9::chr3:157694612..157694655,-	p5@Srsf11
Mm9::chr3:37319195..37319257,+	p1@Spata5
Mm9::chr3:79395359..79395370,+	p2@Ppid
Mm9::chr4:135412002..135412039,+	p2@Srsf10
Mm9::chr4:46463743..46463759,+	p3@Anp32b
Mm9::chr5:121847974..121848013,+	p1@Naa25
Mm9::chr5:92738974..92739026,-	p1@Sdad1
Mm9::chr7:128061283..128061329,+	p1@Polr3e
Mm9::chr7:133645494..133645563,-	p@chr7:133645494..133645563 -
Mm9::chr8:126545352..126545415,+	p1@Urb2
Mm9::chr9:110003514..110003556,-	p2@Dhx30
Mm9::chr9:78329464..78329521,-	p1@Eef1a1
Mm9::chr9:95758113..95758129,+	p2@Atr

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	0.00893147018551157
GO:0044424	intracellular part	0.00893147018551157
GO:0003723	RNA binding	0.00893147018551157
GO:0005622	intracellular	0.00893147018551157
GO:0043231	intracellular membrane-bound organelle	0.00893147018551157
GO:0043227	membrane-bound organelle	0.00893147018551157
GO:0010467	gene expression	0.0124184894000314
GO:0003676	nucleic acid binding	0.0124184894000314
GO:0003899	DNA-directed RNA polymerase activity	0.0124184894000314
GO:0000166	nucleotide binding	0.0250303259944819
GO:0043229	intracellular organelle	0.0250303259944819
GO:0043226	organelle	0.0250303259944819
GO:0032405	MutLalpha complex binding	0.0250303259944819
GO:0032407	MutSalpha complex binding	0.0250303259944819
GO:0008432	JUN kinase binding	0.0250303259944819
GO:0032404	mismatch repair complex binding	0.0250303259944819
GO:0042405	nuclear inclusion body	0.0250303259944819
GO:0044428	nuclear part	0.0250303259944819
GO:0000109	nucleotide-excision repair complex	0.034379028864868
GO:0016973	poly(A)+ mRNA export from nucleus	0.0395695407995545
GO:0006283	transcription-coupled nucleotide-excision repair	0.0395695407995545
GO:0016234	inclusion body	0.0395695407995545
GO:0006139	nucleobase, nucleoside, nucleotide and nucleic acid metabolic process	0.040060873560071
GO:0016779	nucleotidyltransferase activity	0.0418329151080293
GO:0005528	FK506 binding	0.0418329151080293
GO:0005527	macrolide binding	0.0418329151080293
GO:0043393	regulation of protein binding	0.0464582033755782
GO:0008144	drug binding	0.0464582033755782
GO:0044238	primary metabolic process	0.0464582033755782
GO:0051320	S phase	0.0464582033755782
GO:0000084	S phase of mitotic cell cycle	0.0464582033755782
GO:0044237	cellular metabolic process	0.0464582033755782
GO:0006457	protein folding	0.0464582033755782
GO:0005487	nucleocytoplasmic transporter activity	0.0496520151209464

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><br>

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Cell Type

Ontology term	p-value	n
hematopoietic cell	1.18e-09	32
hematopoietic oligopotent progenitor cell	1.18e-09	32
hematopoietic stem cell	1.18e-09	32
angioblastic mesenchymal cell	1.18e-09	32
hematopoietic multipotent progenitor cell	1.18e-09	32
lymphocyte	1.84e-08	13
common lymphoid progenitor	1.84e-08	13
nucleate cell	3.12e-08	16
lymphoid lineage restricted progenitor cell	4.86e-08	12
T cell	2.00e-07	11
pro-T cell	2.00e-07	11
mature alpha-beta T cell	7.23e-07	9
alpha-beta T cell	7.23e-07	9
immature T cell	7.23e-07	9
mature T cell	7.23e-07	9
immature alpha-beta T cell	7.23e-07	9

Uber Anatomy

Ontology term	p-value	n
hemopoietic organ	8.87e-08	29
immune organ	8.87e-08	29
anterior region of body	9.04e-08	43

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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