MCL coexpression mm9:466

Phase1 CAGE Peaks

	Short description
Mm9::chr12:32184406..32184428,-	p1@Cbll1
Mm9::chr12:70458107..70458168,-	p1@Nemf
Mm9::chr12:84973158..84973275,+	p1@Rbm25
Mm9::chr13:29947499..29947545,-	p1@Cdkal1
Mm9::chr13:55736363..55736397,+	p1@Ddx46
Mm9::chr13:67654035..67654112,-	p1@Zfp748
Mm9::chr16:87432729..87432793,-	p1@Ltn1
Mm9::chr3:51219908..51219966,+	p1@Naa15
Mm9::chr4:132194943..132195033,+	p1@Eya3
Mm9::chr4:48486275..48486329,-	p1@Tex10
Mm9::chr5:124199383..124199400,-	p1@Rsrc2
Mm9::chr5:151468135..151468181,-	p1@N4bp2l2
Mm9::chr6:118369406..118369459,-	p1@Bms1
Mm9::chr6:35083688..35083730,-	p1@Cnot4
Mm9::chr7:13420322..13420401,+	p1@Zfp110
Mm9::chr9:62828681..62828709,-	p1@Pias1

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:0003676	nucleic acid binding	0.00530572852107038
GO:0016070	RNA metabolic process	0.00903518597931577
GO:0046914	transition metal ion binding	0.00903518597931577
GO:0010467	gene expression	0.0150623954367083
GO:0043283	biopolymer metabolic process	0.0150623954367083
GO:0008270	zinc ion binding	0.0155505022672948
GO:0006139	nucleobase, nucleoside, nucleotide and nucleic acid metabolic process	0.0155505022672948
GO:0006512	ubiquitin cycle	0.0155505022672948
GO:0043169	cation binding	0.0186580699103838
GO:0046872	metal ion binding	0.0262872557322886
GO:0043167	ion binding	0.0267108832279013
GO:0043170	macromolecule metabolic process	0.036282835004813
GO:0006397	mRNA processing	0.0417523094957805
GO:0030335	positive regulation of cell migration	0.0417523094957805
GO:0007162	negative regulation of cell adhesion	0.0417523094957805
GO:0016071	mRNA metabolic process	0.0417523094957805
GO:0006355	regulation of transcription, DNA-dependent	0.0417523094957805
GO:0051272	positive regulation of cell motility	0.0417523094957805
GO:0040017	positive regulation of locomotion	0.0417523094957805
GO:0006351	transcription, DNA-dependent	0.0417523094957805
GO:0032774	RNA biosynthetic process	0.0417523094957805
GO:0044238	primary metabolic process	0.0417523094957805
GO:0044237	cellular metabolic process	0.0417523094957805
GO:0045449	regulation of transcription	0.0417523094957805
GO:0051539	4 iron, 4 sulfur cluster binding	0.0417523094957805
GO:0019219	regulation of nucleobase, nucleoside, nucleotide and nucleic acid metabolic process	0.0417523094957805
GO:0006350	transcription	0.0417523094957805
GO:0050794	regulation of cellular process	0.0417523094957805
GO:0045807	positive regulation of endocytosis	0.0417523094957805
GO:0016874	ligase activity	0.0417523094957805
GO:0010468	regulation of gene expression	0.0449082443095962
GO:0006396	RNA processing	0.0449082443095962
GO:0007259	JAK-STAT cascade	0.047240253790555
GO:0031323	regulation of cellular metabolic process	0.047240253790555

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
mature alpha-beta T cell	5.18e-07	9
alpha-beta T cell	5.18e-07	9
immature T cell	5.18e-07	9
mature T cell	5.18e-07	9
immature alpha-beta T cell	5.18e-07	9
lymphocyte	7.05e-07	13
common lymphoid progenitor	7.05e-07	13

Uber Anatomy

Ontology term	p-value	n
primordium	2.76e-10	134
anterior region of body	4.32e-10	43
respiratory system	1.92e-09	42
respiratory tract	3.95e-09	41
mixed endoderm/mesoderm-derived structure	1.20e-08	35
craniocervical region	1.51e-08	36
hemopoietic organ	1.55e-08	29
immune organ	1.55e-08	29
gland of gut	1.22e-07	24
pharynx	1.37e-07	24
upper respiratory tract	1.37e-07	24
chordate pharynx	1.37e-07	24
pharyngeal arch system	1.37e-07	24
pharyngeal region of foregut	1.37e-07	24
thymus	2.49e-07	23
neck	2.49e-07	23
respiratory system epithelium	2.49e-07	23
hemolymphoid system gland	2.49e-07	23
pharyngeal epithelium	2.49e-07	23
thymic region	2.49e-07	23
pharyngeal gland	2.49e-07	23
entire pharyngeal arch endoderm	2.49e-07	23
thymus primordium	2.49e-07	23
early pharyngeal endoderm	2.49e-07	23

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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