MCL coexpression mm9:604

Phase1 CAGE Peaks

	Short description
Mm9::chr11:69780398..69780413,+	p2@Cldn7
Mm9::chr13:101222804..101222815,-	p1@Naip1
Mm9::chr14:52636491..52636519,+	p2@G630016D24Rik
Mm9::chr1:172815273..172815329,-	p3@Dusp12
Mm9::chr1:178927958..178928000,+	p2@Sdccag8
Mm9::chr1:95057484..95057532,-	p1@2310007B03Rik
Mm9::chr5:124901158..124901176,+	p13@Setd8
Mm9::chr7:104979429..104979440,+	p@chr7:104979429..104979440 +
Mm9::chr7:17507398..17507413,+	p@chr7:17507398..17507413 +
Mm9::chr7:36234155..36234162,+	p6@Slc7a9
Mm9::chr8:14888022..14888037,+	p7@Cln8
Mm9::chr9:95715715..95715726,-	p3@Pls1

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:0006865	amino acid transport	0.00742592749386153
GO:0015837	amine transport	0.00742592749386153
GO:0046942	carboxylic acid transport	0.00742592749386153
GO:0015849	organic acid transport	0.00742592749386153
GO:0051938	L-glutamate import	0.00742592749386153
GO:0001306	age-dependent response to oxidative stress	0.00742592749386153
GO:0007571	age-dependent general metabolic decline	0.00742592749386153
GO:0051935	glutamate uptake during transmission of nerve impulse	0.00742592749386153
GO:0043092	L-amino acid import	0.00742592749386153
GO:0043090	amino acid import	0.00742592749386153
GO:0051933	amino acid uptake during transmission of nerve impulse	0.00742592749386153
GO:0043066	negative regulation of apoptosis	0.0227637367820043
GO:0043069	negative regulation of programmed cell death	0.0227637367820043
GO:0015813	L-glutamate transport	0.0233271231683103
GO:0050881	musculoskeletal movement	0.0240092682974037
GO:0015800	acidic amino acid transport	0.0240092682974037
GO:0050879	multicellular organismal movement	0.0240092682974037
GO:0050884	neuromuscular process controlling posture	0.0244854287352586
GO:0021517	ventral spinal cord development	0.0244854287352586
GO:0021522	spinal cord motor neuron differentiation	0.0244854287352586
GO:0001504	neurotransmitter uptake	0.0259651260297395
GO:0021515	cell differentiation in spinal cord	0.0259651260297395
GO:0035176	social behavior	0.028379572271805
GO:0060041	retina development in camera-type eye	0.0293680300337478
GO:0060052	neurofilament cytoskeleton organization and biogenesis	0.0293680300337478
GO:0015807	L-amino acid transport	0.0302090572509609
GO:0045494	photoreceptor cell maintenance	0.0302090572509609
GO:0021510	spinal cord development	0.0365453531738146
GO:0007006	mitochondrial membrane organization and biogenesis	0.0365453531738146
GO:0008306	associative learning	0.0380383978584187
GO:0007040	lysosome organization and biogenesis	0.0394342539518126
GO:0018024	histone-lysine N-methyltransferase activity	0.0395714715565424
GO:0016278	lysine N-methyltransferase activity	0.0395714715565424
GO:0045104	intermediate filament cytoskeleton organization and biogenesis	0.0395714715565424
GO:0016279	protein-lysine N-methyltransferase activity	0.0395714715565424
GO:0007033	vacuole organization and biogenesis	0.0429842832395465
GO:0045103	intermediate filament-based process	0.0436800695348437
GO:0042981	regulation of apoptosis	0.0436800695348437
GO:0043067	regulation of programmed cell death	0.0436800695348437
GO:0007628	adult walking behavior	0.0436800695348437
GO:0051705	behavioral interaction between organisms	0.0436800695348437
GO:0042054	histone methyltransferase activity	0.0465011535712391

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
intestinal epithelial cell	1.72e-09	9
epithelial cell of alimentary canal	1.72e-09	9
brush border epithelial cell	1.98e-07	6
gut absorptive cell	1.98e-07	6
absorptive cell	1.98e-07	6
enterocyte	1.98e-07	6

Uber Anatomy

Ontology term	p-value	n
intestine	1.33e-29	31
gastrointestinal system	2.63e-22	47
mucosa	5.72e-16	15
intestinal mucosa	7.27e-14	13
anatomical wall	7.27e-14	13
wall of intestine	7.27e-14	13
gastrointestinal system mucosa	7.27e-14	13
organ component layer	9.84e-12	24
epithelium of mucosa	1.72e-09	9
gastrointestinal system epithelium	1.72e-09	9
intestinal epithelium	1.72e-09	9
simple columnar epithelium	2.45e-07	11

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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