MCL coexpression mm9:2757

Phase1 CAGE Peaks

	Short description
Mm9::chr12:100158741..100158763,+	p2@Ttc8
Mm9::chr12:100158777..100158829,+	p1@Ttc8
Mm9::chr8:96622242..96622288,-	p1@Bbs2

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:0032990	cell part morphogenesis	0.00383725525219653
GO:0030030	cell projection organization and biogenesis	0.00383725525219653
GO:0048858	cell projection morphogenesis	0.00383725525219653
GO:0035084	flagellum axoneme biogenesis	0.00394401676804148
GO:0007288	sperm axoneme assembly	0.00394401676804148
GO:0035082	axoneme biogenesis	0.00394401676804148
GO:0032989	cellular structure morphogenesis	0.00394401676804148
GO:0000902	cell morphogenesis	0.00394401676804148
GO:0009296	flagellum biogenesis	0.00394401676804148
GO:0043064	flagellum organization and biogenesis	0.00414110414531841
GO:0040015	negative regulation of multicellular organism growth	0.004436654167573
GO:0001578	microtubule bundle formation	0.004436654167573
GO:0045494	photoreceptor cell maintenance	0.004550289848289
GO:0045926	negative regulation of growth	0.0105588312374131
GO:0009653	anatomical structure morphogenesis	0.0132778908246798
GO:0007286	spermatid development	0.0152961233346457
GO:0048515	spermatid differentiation	0.0152961233346457
GO:0030031	cell projection biogenesis	0.0157579132921437
GO:0040014	regulation of multicellular organism growth	0.0161708207912581
GO:0035264	multicellular organism growth	0.0171587491100827
GO:0030534	adult behavior	0.0171587491100827
GO:0000226	microtubule cytoskeleton organization and biogenesis	0.0171829064360956
GO:0048856	anatomical structure development	0.0255344755434262
GO:0007601	visual perception	0.0261915865658138
GO:0050953	sensory perception of light stimulus	0.0261915865658138
GO:0016043	cellular component organization and biogenesis	0.0323024183464406
GO:0040008	regulation of growth	0.0323024183464406
GO:0007017	microtubule-based process	0.0370132419321383
GO:0007283	spermatogenesis	0.0382550392137857
GO:0048232	male gamete generation	0.0382550392137857
GO:0019725	cellular homeostasis	0.039810733065846
GO:0032502	developmental process	0.039810733065846
GO:0007276	gamete generation	0.0445187564059488

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
CNS neuron (sensu Vertebrata)	3.69e-08	23
neuroblast (sensu Vertebrata)	3.69e-08	23
neuron	5.39e-08	33
neuronal stem cell	5.39e-08	33
neuroblast	5.39e-08	33
electrically signaling cell	5.39e-08	33
electrically responsive cell	8.69e-07	39
electrically active cell	8.69e-07	39

Uber Anatomy

Ontology term	p-value	n
neurectoderm	6.38e-26	64
neural plate	6.38e-26	64
presumptive neural plate	6.38e-26	64
ectoderm-derived structure	9.39e-24	95
ectoderm	9.39e-24	95
presumptive ectoderm	9.39e-24	95
central nervous system	1.43e-23	73
ecto-epithelium	2.29e-23	73
nervous system	2.45e-22	75
pre-chordal neural plate	3.26e-22	49
regional part of nervous system	4.62e-22	54
neural tube	6.28e-21	52
neural rod	6.28e-21	52
future spinal cord	6.28e-21	52
neural keel	6.28e-21	52
brain	5.67e-20	47
future brain	5.67e-20	47
structure with developmental contribution from neural crest	1.07e-19	92
regional part of brain	2.93e-19	46
anterior neural tube	6.06e-18	40
regional part of forebrain	2.87e-17	39
forebrain	2.87e-17	39
future forebrain	2.87e-17	39
gray matter	5.80e-13	34
brain grey matter	5.75e-12	29
regional part of telencephalon	5.75e-12	29
telencephalon	5.75e-12	29
cerebral cortex	5.76e-09	21
cerebral hemisphere	5.76e-09	21
pallium	5.76e-09	21
anatomical conduit	1.34e-08	122
regional part of cerebral cortex	4.83e-08	17
multi-cellular organism	1.23e-07	333
tube	1.33e-07	114
occipital lobe	4.02e-07	10
visual cortex	4.02e-07	10
neocortex	4.02e-07	10

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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