MCL coexpression mm9:1805

Phase1 CAGE Peaks

	Short description
Mm9::chr4:57885681..57885689,+	p@chr4:57885681..57885689 +
Mm9::chr4:57905792..57905813,+	p@chr4:57905792..57905813 +
Mm9::chr4:57905869..57905880,+	p@chr4:57905869..57905880 +
Mm9::chr4:57906592..57906605,+	p@chr4:57906592..57906605 +
Mm9::chr8:37631781..37631786,-	p@chr8:37631781..37631786 -

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:0030036	actin cytoskeleton organization and biogenesis	0.00300527903998777
GO:0030029	actin filament-based process	0.00300527903998777
GO:0048041	focal adhesion formation	0.0110705550622698
GO:0007010	cytoskeleton organization and biogenesis	0.0110705550622698
GO:0051018	protein kinase A binding	0.0129707221430816
GO:0005100	Rho GTPase activator activity	0.0185255414448508
GO:0021575	hindbrain morphogenesis	0.0185255414448508
GO:0006996	organelle organization and biogenesis	0.0230730798064303
GO:0003007	heart morphogenesis	0.0230730798064303
GO:0007015	actin filament organization	0.0230730798064303
GO:0030902	hindbrain development	0.0230730798064303
GO:0001843	neural tube closure	0.0230730798064303
GO:0014020	primary neural tube formation	0.0230730798064303
GO:0005099	Ras GTPase activator activity	0.0230730798064303
GO:0019901	protein kinase binding	0.0230730798064303
GO:0019900	kinase binding	0.0230730798064303
GO:0001841	neural tube formation	0.0230730798064303
GO:0001839	neural plate morphogenesis	0.0230730798064303
GO:0001840	neural plate development	0.0230730798064303
GO:0001838	embryonic epithelial tube formation	0.0230730798064303
GO:0007160	cell-matrix adhesion	0.0235769978571226
GO:0021915	neural tube development	0.0235769978571226
GO:0031589	cell-substrate adhesion	0.0235769978571226
GO:0016331	morphogenesis of embryonic epithelium	0.0246139683323876
GO:0007178	transmembrane receptor protein serine/threonine kinase signaling pathway	0.0248944883805912
GO:0007266	Rho protein signal transduction	0.0248944883805912
GO:0030900	forebrain development	0.0299491345571582
GO:0002009	morphogenesis of an epithelium	0.0354993707898815
GO:0019899	enzyme binding	0.0358622256579649
GO:0016043	cellular component organization and biogenesis	0.0358622256579649
GO:0035239	tube morphogenesis	0.0358622256579649
GO:0007265	Ras protein signal transduction	0.0358622256579649
GO:0005083	small GTPase regulator activity	0.0358622256579649
GO:0005096	GTPase activator activity	0.0358622256579649
GO:0007507	heart development	0.0392006300624062
GO:0007420	brain development	0.0412344423135765
GO:0048598	embryonic morphogenesis	0.0417653652618351
GO:0035295	tube development	0.0417653652618351
GO:0008047	enzyme activator activity	0.0417653652618351
GO:0016337	cell-cell adhesion	0.041923842515526
GO:0043009	chordate embryonic development	0.0429798586251968
GO:0009792	embryonic development ending in birth or egg hatching	0.0429798586251968
GO:0007417	central nervous system development	0.043283859516484
GO:0007167	enzyme linked receptor protein signaling pathway	0.0486622483649315

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><br>uberon_data<br><br>

---

Uber Anatomy

Ontology term	p-value	n
cardiovascular system	6.40e-11	23
circulatory system	6.40e-11	23
splanchnic layer of lateral plate mesoderm	7.47e-11	33
primary circulatory organ	1.23e-10	18
heart	1.23e-10	18
primitive heart tube	1.23e-10	18
primary heart field	1.23e-10	18
anterior lateral plate mesoderm	1.23e-10	18
heart tube	1.23e-10	18
heart primordium	1.23e-10	18
cardiac mesoderm	1.23e-10	18
cardiogenic plate	1.23e-10	18
heart rudiment	1.23e-10	18
compound organ	9.73e-08	43
lung	1.57e-07	14
respiratory tube	1.57e-07	14
respiration organ	1.57e-07	14
pair of lungs	1.57e-07	14
lung primordium	1.57e-07	14
lung bud	1.57e-07	14
multi-cellular organism	5.09e-07	333
embryo	7.76e-07	320

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}}}