MCL coexpression mm9:641

Phase1 CAGE Peaks

	Short description
Mm9::chr10:79132158..79132204,+	p@chr10:79132158..79132204 +
Mm9::chr11:78141927..78141974,+	p1@Pigs
Mm9::chr2:131005721..131005828,-	p1@Cenpb
Mm9::chr2:32837527..32837606,-	p1@Slc2a8
Mm9::chr5:120953602..120953636,-	p1@Plbd2
Mm9::chr5:24092539..24092612,+	p1@Chpf2
Mm9::chr7:149573800..149573811,-	p3@Ctsd
Mm9::chr7:52765770..52765783,-	p2@Nucb1
Mm9::chr8:26127724..26127777,+	p1@Tm2d2
Mm9::chr8:26127778..26127792,+	p2@Tm2d2
Mm9::chrX:71638550..71638606,-	p2@Fam3a

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:0005536	glucose binding	0.00542376595628116
GO:0015284	fructose uniporter activity	0.00542376595628116
GO:0015757	galactose transport	0.00542376595628116
GO:0004192	cathepsin D activity	0.00542376595628116
GO:0015755	fructose transport	0.00542376595628116
GO:0005354	galactose transmembrane transporter activity	0.00542376595628116
GO:0015292	uniporter activity	0.00542376595628116
GO:0008516	hexose uniporter activity	0.00542376595628116
GO:0005353	fructose transmembrane transporter activity	0.00964092987743474
GO:0003923	GPI-anchor transamidase activity	0.0130134726345087
GO:0004194	pepsin A activity	0.0315262134324555
GO:0005355	glucose transmembrane transporter activity	0.0340455772610801
GO:0015145	monosaccharide transmembrane transporter activity	0.0340455772610801
GO:0015149	hexose transmembrane transporter activity	0.0340455772610801
GO:0004190	aspartic-type endopeptidase activity	0.0475920528897136
GO:0006506	GPI anchor biosynthetic process	0.0475920528897136
GO:0048029	monosaccharide binding	0.0475920528897136
GO:0046489	phosphoinositide biosynthetic process	0.0475920528897136
GO:0001666	response to hypoxia	0.0475920528897136
GO:0006505	GPI anchor metabolic process	0.0475920528897136
GO:0008286	insulin receptor signaling pathway	0.0484175615673511
GO:0015758	glucose transport	0.0484175615673511
GO:0044444	cytoplasmic part	0.0484175615673511
GO:0008645	hexose transport	0.0484175615673511
GO:0015749	monosaccharide transport	0.0484175615673511
GO:0046474	glycerophospholipid biosynthetic process	0.049867069573456

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
non-terminally differentiated cell	1.05e-14	49
ectodermal cell	9.36e-12	44
neurectodermal cell	9.36e-12	44
neural cell	2.15e-11	43
electrically responsive cell	8.22e-10	39
electrically active cell	8.22e-10	39
embryonic cell	1.75e-09	70
neuron	7.31e-07	33
neuronal stem cell	7.31e-07	33
neuroblast	7.31e-07	33
electrically signaling cell	7.31e-07	33
oligodendrocyte precursor cell	9.93e-07	8

Uber Anatomy

Ontology term	p-value	n
nervous system	6.89e-21	75
central nervous system	9.36e-21	73
ectoderm-derived structure	1.14e-17	95
ectoderm	1.14e-17	95
presumptive ectoderm	1.14e-17	95
anatomical conduit	1.84e-16	122
regional part of nervous system	3.80e-16	54
neural tube	6.56e-15	52
neural rod	6.56e-15	52
future spinal cord	6.56e-15	52
neural keel	6.56e-15	52
tube	7.15e-15	114
structure with developmental contribution from neural crest	1.06e-13	92
neurectoderm	1.12e-12	64
neural plate	1.12e-12	64
presumptive neural plate	1.12e-12	64
brain	3.30e-12	47
future brain	3.30e-12	47
regional part of brain	3.68e-12	46
ecto-epithelium	1.07e-11	73
anterior neural tube	4.21e-10	40
regional part of forebrain	8.26e-10	39
forebrain	8.26e-10	39
future forebrain	8.26e-10	39
gray matter	1.11e-09	34
anatomical system	2.49e-08	308
anatomical group	2.49e-08	308
pre-chordal neural plate	2.97e-08	49
brain grey matter	1.95e-07	29
regional part of telencephalon	1.95e-07	29
telencephalon	1.95e-07	29

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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