MCL coexpression mm9:579

Phase1 CAGE Peaks

	Short description
Mm9::chr1:167979420..167979430,-	p@chr1:167979420..167979430 -
Mm9::chr1:88008484..88008502,-	p1@Htr2b
Mm9::chr1:88008549..88008559,-	p4@Htr2b
Mm9::chr5:46030754..46030764,-	p9@Fam184b
Mm9::chr6:52134126..52134150,-	p3@Hoxa3
Mm9::chr6:52150945..52150972,-	p@chr6:52150945..52150972 -
Mm9::chr6:52154238..52154249,-	p@chr6:52154238..52154249 -
Mm9::chr6:52154250..52154261,-	p@chr6:52154250..52154261 -
Mm9::chr6:52158594..52158603,-	p@chr6:52158594..52158603 -
Mm9::chr6:52158644..52158677,-	p2@Hoxa6
Mm9::chr6:52158693..52158704,-	p3@Hoxa6
Mm9::chr7:143239748..143239753,+	p@chr7:143239748..143239753 +
Mm9::chr7:90733420..90733452,+	p1@Tmc3

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:0030878	thyroid gland development	0.000264510601677618
GO:0007389	pattern specification process	0.00100009650135802
GO:0035270	endocrine system development	0.00211471297284635
GO:0005667	transcription factor complex	0.00211471297284635
GO:0043565	sequence-specific DNA binding	0.00211471297284635
GO:0048513	organ development	0.00211471297284635
GO:0048732	gland development	0.00225220441401724
GO:0044451	nucleoplasm part	0.00242098164069026
GO:0005654	nucleoplasm	0.00242098164069026
GO:0007208	serotonin receptor, phospholipase C activating pathway	0.00242098164069026
GO:0010159	specification of organ position	0.00242098164069026
GO:0048731	system development	0.00242098164069026
GO:0031981	nuclear lumen	0.00319687370249835
GO:0048856	anatomical structure development	0.00370282624107661
GO:0031974	membrane-enclosed lumen	0.00370282624107661
GO:0043233	organelle lumen	0.00370282624107661
GO:0003700	transcription factor activity	0.00433360440008938
GO:0048645	organ formation	0.00433360440008938
GO:0007275	multicellular organismal development	0.00433360440008938
GO:0004993	serotonin receptor activity	0.0064981429671822
GO:0044428	nuclear part	0.0064981429671822
GO:0060017	parathyroid gland development	0.00731732659293826
GO:0032502	developmental process	0.0103891849204865
GO:0048538	thymus development	0.0122904378955735
GO:0001974	blood vessel remodeling	0.0160822496074205
GO:0043234	protein complex	0.0205097952260478
GO:0009887	organ morphogenesis	0.0255291364520487
GO:0006355	regulation of transcription, DNA-dependent	0.0265542966378389
GO:0007200	G-protein signaling, coupled to IP3 second messenger (phospholipase C activating)	0.0265542966378389
GO:0006351	transcription, DNA-dependent	0.0265542966378389
GO:0032774	RNA biosynthetic process	0.0265542966378389
GO:0003677	DNA binding	0.0265542966378389
GO:0032501	multicellular organismal process	0.0265542966378389
GO:0045449	regulation of transcription	0.0265542966378389
GO:0019219	regulation of nucleobase, nucleoside, nucleotide and nucleic acid metabolic process	0.027265232509695
GO:0006350	transcription	0.0275013928801281
GO:0032991	macromolecular complex	0.0278271397480886
GO:0010468	regulation of gene expression	0.0286030678762791
GO:0008227	amine receptor activity	0.0293905752996614
GO:0048015	phosphoinositide-mediated signaling	0.0293905752996614
GO:0031323	regulation of cellular metabolic process	0.0296886877046355
GO:0019222	regulation of metabolic process	0.0320960470415823
GO:0016070	RNA metabolic process	0.0337259669511626
GO:0044446	intracellular organelle part	0.035365382243543
GO:0044422	organelle part	0.035365382243543
GO:0035264	multicellular organism growth	0.035365382243543

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
autonomic neuron	1.21e-07	9

Uber Anatomy

Ontology term	p-value	n
autonomic nervous system	1.21e-07	9
neural crest-derived structure	6.23e-07	3
neural crest	6.23e-07	3
enteric nervous system	6.23e-07	3
vagal neural crest	6.23e-07	3
neural fold	6.23e-07	3

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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