MCL coexpression mm9:1715

Phase1 CAGE Peaks

	Short description
Mm9::chr18:37833957..37834019,+	p2@Pcdhga11 p2@Pcdhga12 p2@Pcdhga3 p2@Pcdhga8 p2@Pcdhga9 p2@Pcdhgb6 p2@Pcdhgc3 p2@Pcdhgc4 p2@Pcdhgc5
Mm9::chr18:37839908..37839961,+	p1@Pcdhgb1
Mm9::chr18:37885375..37885408,+	p8@Pcdhga11 p8@Pcdhga12 p8@Pcdhga3 p8@Pcdhga8 p8@Pcdhga9 p8@Pcdhgb6 p8@Pcdhgc3 p8@Pcdhgc4 p8@Pcdhgc5
Mm9::chr18:37915372..37915421,+	p4@Pcdhga11 p4@Pcdhga12 p4@Pcdhga3 p4@Pcdhga8 p4@Pcdhga9 p4@Pcdhgb6 p4@Pcdhgc3 p4@Pcdhgc4 p4@Pcdhgc5
Mm9::chr18:37925612..37925662,+	p9@Pcdhga11 p9@Pcdhga12 p9@Pcdhga3 p9@Pcdhga8 p9@Pcdhga9 p9@Pcdhgb6 p9@Pcdhgc3 p9@Pcdhgc4 p9@Pcdhgc5

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:0005624	membrane fraction	6.13115797569772e-06
GO:0000267	cell fraction	6.13115797569772e-06
GO:0022610	biological adhesion	6.13115797569772e-06
GO:0007155	cell adhesion	6.13115797569772e-06
GO:0005509	calcium ion binding	1.52263658322643e-05
GO:0043169	cation binding	0.00342495576586387
GO:0046872	metal ion binding	0.00387237709599195
GO:0043167	ion binding	0.00387237709599195
GO:0016339	calcium-dependent cell-cell adhesion	0.00559615603801538
GO:0030427	site of polarized growth	0.00686518770334967
GO:0030426	growth cone	0.00686518770334967
GO:0005515	protein binding	0.00878908899684793
GO:0016021	integral to membrane	0.0152531132314203
GO:0031224	intrinsic to membrane	0.0152531132314203
GO:0044425	membrane part	0.0196580359574477
GO:0016020	membrane	0.0366972763483849
GO:0005911	intercellular junction	0.0439313037485811

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)	2.99e-10	23
neuroblast (sensu Vertebrata)	2.99e-10	23
ectodermal cell	9.74e-09	44
neurectodermal cell	9.74e-09	44
neural cell	1.47e-08	43
neuron	9.23e-07	33
neuronal stem cell	9.23e-07	33
neuroblast	9.23e-07	33
electrically signaling cell	9.23e-07	33

Uber Anatomy

Ontology term	p-value	n
neurectoderm	4.91e-28	64
neural plate	4.91e-28	64
presumptive neural plate	4.91e-28	64
ectoderm-derived structure	6.36e-28	95
ectoderm	6.36e-28	95
presumptive ectoderm	6.36e-28	95
regional part of nervous system	3.80e-27	54
nervous system	1.32e-26	75
neural tube	1.53e-26	52
neural rod	1.53e-26	52
future spinal cord	1.53e-26	52
neural keel	1.53e-26	52
ecto-epithelium	1.77e-26	73
structure with developmental contribution from neural crest	2.15e-26	92
central nervous system	3.98e-26	73
brain	4.44e-24	47
future brain	4.44e-24	47
pre-chordal neural plate	5.24e-24	49
regional part of brain	2.50e-23	46
anterior neural tube	1.00e-20	40
regional part of forebrain	3.92e-20	39
forebrain	3.92e-20	39
future forebrain	3.92e-20	39
gray matter	4.12e-18	34
brain grey matter	9.74e-16	29
regional part of telencephalon	9.74e-16	29
telencephalon	9.74e-16	29
tube	4.53e-14	114
anatomical conduit	1.12e-13	122
cerebral cortex	1.71e-12	21
cerebral hemisphere	1.71e-12	21
pallium	1.71e-12	21
multi-cellular organism	7.89e-11	333
regional part of cerebral cortex	1.97e-10	17
embryo	9.63e-09	320
occipital lobe	9.70e-08	10
visual cortex	9.70e-08	10
neocortex	9.70e-08	10
tissue	7.47e-07	349

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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