MCL coexpression mm9:2889

Phase1 CAGE Peaks

	Short description
Mm9::chr14:13177759..13177769,-	p@chr14:13177759..13177769 -
Mm9::chr3:127336052..127336058,+	p1@Neurog2
Mm9::chr3:127336115..127336130,+	p4@Neurog2

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:0007411	axon guidance	0.00124906291015972
GO:0030900	forebrain development	0.00124906291015972
GO:0007409	axonogenesis	0.00124906291015972
GO:0048667	neuron morphogenesis during differentiation	0.00124906291015972
GO:0048812	neurite morphogenesis	0.00124906291015972
GO:0007420	brain development	0.00124906291015972
GO:0000904	cellular morphogenesis during differentiation	0.00124906291015972
GO:0031175	neurite development	0.00124906291015972
GO:0048666	neuron development	0.00134628048437791
GO:0007417	central nervous system development	0.00134628048437791
GO:0032990	cell part morphogenesis	0.00134628048437791
GO:0030030	cell projection organization and biogenesis	0.00134628048437791
GO:0048858	cell projection morphogenesis	0.00134628048437791
GO:0016477	cell migration	0.00134628048437791
GO:0030182	neuron differentiation	0.00134628048437791
GO:0048699	generation of neurons	0.00153572334330818
GO:0051674	localization of cell	0.00153572334330818
GO:0006928	cell motility	0.00153572334330818
GO:0022008	neurogenesis	0.00158354700218042
GO:0000902	cell morphogenesis	0.00265576217263822
GO:0032989	cellular structure morphogenesis	0.00265576217263822
GO:0007413	axonal fasciculation	0.00306748455208771
GO:0007399	nervous system development	0.00437908889444871
GO:0008038	neuron recognition	0.00481967251181162
GO:0048468	cell development	0.0124834871001263
GO:0009653	anatomical structure morphogenesis	0.0124834871001263
GO:0016358	dendrite development	0.0139131968176813
GO:0008037	cell recognition	0.0151342595956548
GO:0048513	organ development	0.0159305679619117
GO:0001764	neuron migration	0.0176513093251753
GO:0048731	system development	0.0224973360348367
GO:0048869	cellular developmental process	0.0224973360348367
GO:0030154	cell differentiation	0.0224973360348367
GO:0006355	regulation of transcription, DNA-dependent	0.023515171790163
GO:0006351	transcription, DNA-dependent	0.023515171790163
GO:0032774	RNA biosynthetic process	0.023515171790163
GO:0003677	DNA binding	0.023515171790163
GO:0045449	regulation of transcription	0.023515171790163
GO:0048856	anatomical structure development	0.023515171790163
GO:0045165	cell fate commitment	0.023515171790163
GO:0019219	regulation of nucleobase, nucleoside, nucleotide and nucleic acid metabolic process	0.023515171790163
GO:0006350	transcription	0.0235599839458425
GO:0010468	regulation of gene expression	0.0245836626103766
GO:0031323	regulation of cellular metabolic process	0.0260348618131743
GO:0007275	multicellular organismal development	0.0266433296142497
GO:0019222	regulation of metabolic process	0.0267785168787377
GO:0016070	RNA metabolic process	0.0276105812568531
GO:0016043	cellular component organization and biogenesis	0.0294279617847082
GO:0051179	localization	0.036777439749709
GO:0010467	gene expression	0.036777439749709
GO:0045944	positive regulation of transcription from RNA polymerase II promoter	0.036777439749709
GO:0007626	locomotory behavior	0.036777439749709
GO:0003676	nucleic acid binding	0.036777439749709
GO:0032502	developmental process	0.0384454815889651
GO:0045893	positive regulation of transcription, DNA-dependent	0.0404244133536262
GO:0006139	nucleobase, nucleoside, nucleotide and nucleic acid metabolic process	0.0404244133536262
GO:0050794	regulation of cellular process	0.0456755795278891
GO:0045941	positive regulation of transcription	0.0463567189513623
GO:0045935	positive regulation of nucleobase, nucleoside, nucleotide and nucleic acid metabolic process	0.0465363489932472
GO:0007610	behavior	0.0497125321318605

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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