MCL coexpression mm9:925

Phase1 CAGE Peaks

	Short description
Mm9::chr11:98798983..98799049,+	p1@Rara
Mm9::chr13:3610263..3610280,-	p3@BC016423
Mm9::chr14:75347602..75347611,-	p3@Lrch1
Mm9::chr2:153171907..153171931,+	p4@Asxl1
Mm9::chr4:140258131..140258153,+	p@chr4:140258131..140258153 +
Mm9::chr5:32439348..32439350,+	p@chr5:32439348..32439350 +
Mm9::chr6:140572167..140572236,+	p2@Aebp2
Mm9::chrX:11657701..11657708,-	p7@Bcor

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

---

GO ID	GO name	FDR corrected p-value
GO:0003708	retinoic acid receptor activity	0.0390406349406792
GO:0016564	transcription repressor activity	0.0390406349406792
GO:0055012	ventricular cardiac muscle cell differentiation	0.0390406349406792
GO:0006355	regulation of transcription, DNA-dependent	0.0390406349406792
GO:0006351	transcription, DNA-dependent	0.0390406349406792
GO:0032774	RNA biosynthetic process	0.0390406349406792
GO:0045449	regulation of transcription	0.0390406349406792
GO:0019219	regulation of nucleobase, nucleoside, nucleotide and nucleic acid metabolic process	0.0390406349406792
GO:0006350	transcription	0.0390406349406792
GO:0055007	cardiac muscle cell differentiation	0.0390406349406792
GO:0010468	regulation of gene expression	0.0390406349406792
GO:0031323	regulation of cellular metabolic process	0.0415385883410495
GO:0019222	regulation of metabolic process	0.042853123543253
GO:0016070	RNA metabolic process	0.042853123543253
GO:0035051	cardiac cell differentiation	0.042853123543253
GO:0005634	nucleus	0.0459484764591356

Relative expression of the co-expression cluster over median <br>Analyst:

---

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>

---

Cell Type

Ontology term	p-value	n
mature alpha-beta T cell	2.67e-07	9
alpha-beta T cell	2.67e-07	9
immature T cell	2.67e-07	9
mature T cell	2.67e-07	9
immature alpha-beta T cell	2.67e-07	9

Uber Anatomy

Ontology term	p-value	n
thymus	1.68e-07	23
neck	1.68e-07	23
respiratory system epithelium	1.68e-07	23
hemolymphoid system gland	1.68e-07	23
pharyngeal epithelium	1.68e-07	23
thymic region	1.68e-07	23
pharyngeal gland	1.68e-07	23
entire pharyngeal arch endoderm	1.68e-07	23
thymus primordium	1.68e-07	23
early pharyngeal endoderm	1.68e-07	23
pharynx	2.25e-07	24
upper respiratory tract	2.25e-07	24
chordate pharynx	2.25e-07	24
pharyngeal arch system	2.25e-07	24
pharyngeal region of foregut	2.25e-07	24
gland of gut	7.20e-07	24

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

---

Novel motifs

JASPAR motifs

Motifs	-log10(p-value)
{{{tfbs_overrepresentation_jaspar}}}