MCL coexpression mm9:1385

Phase1 CAGE Peaks

	Short description
Mm9::chr16:7149860..7149888,+	p@chr16:7149860..7149888 +
Mm9::chr16:7150004..7150009,+	p@chr16:7150004..7150009 +
Mm9::chr16:72027706..72027715,+	p@chr16:72027706..72027715 +
Mm9::chr6:15147087..15147102,+	p@chr6:15147087..15147102 +
Mm9::chr6:6813551..6813570,+	p5@Dlx6
Mm9::chr6:6817869..6817879,+	p@chr6:6817869..6817879 +

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:0031223	auditory behavior	0.00624554867692982
GO:0042297	vocal learning	0.00624554867692982
GO:0007638	mechanosensory behavior	0.011369759253142
GO:0048745	smooth muscle development	0.011369759253142
GO:0043565	sequence-specific DNA binding	0.011369759253142
GO:0009790	embryonic development	0.011369759253142
GO:0010464	regulation of mesenchymal cell proliferation	0.0124883598790944
GO:0010463	mesenchymal cell proliferation	0.0124883598790944
GO:0002053	positive regulation of mesenchymal cell proliferation	0.0124883598790944
GO:0016566	specific transcriptional repressor activity	0.0136225454466081
GO:0048286	alveolus development	0.0136225454466081
GO:0050679	positive regulation of epithelial cell proliferation	0.0156078834662755
GO:0009612	response to mechanical stimulus	0.0157798799834461
GO:0003700	transcription factor activity	0.0157798799834461
GO:0022037	metencephalon development	0.0176233794549311
GO:0021549	cerebellum development	0.0176233794549311
GO:0050678	regulation of epithelial cell proliferation	0.0176233794549311
GO:0050673	epithelial cell proliferation	0.0214947659182327
GO:0030902	hindbrain development	0.027580886706257
GO:0007612	learning	0.0305629476379068
GO:0046982	protein heterodimerization activity	0.0320469327081517
GO:0030326	embryonic limb morphogenesis	0.0320469327081517
GO:0035113	embryonic appendage morphogenesis	0.0320469327081517
GO:0030324	lung development	0.0320469327081517
GO:0030323	respiratory tube development	0.0320469327081517
GO:0007611	learning and/or memory	0.0320469327081517
GO:0035107	appendage morphogenesis	0.0320469327081517
GO:0035108	limb morphogenesis	0.0320469327081517
GO:0048736	appendage development	0.0320469327081517
GO:0060173	limb development	0.0320469327081517
GO:0006355	regulation of transcription, DNA-dependent	0.0320469327081517
GO:0006351	transcription, DNA-dependent	0.0320469327081517
GO:0032774	RNA biosynthetic process	0.0320469327081517
GO:0003677	DNA binding	0.0320469327081517
GO:0007519	skeletal muscle development	0.0320469327081517
GO:0045449	regulation of transcription	0.0320469327081517
GO:0048856	anatomical structure development	0.0320469327081517
GO:0019219	regulation of nucleobase, nucleoside, nucleotide and nucleic acid metabolic process	0.0320469327081517
GO:0042803	protein homodimerization activity	0.0320469327081517
GO:0006350	transcription	0.0320469327081517
GO:0010468	regulation of gene expression	0.0334005305199739
GO:0031323	regulation of cellular metabolic process	0.0352996593287968
GO:0014706	striated muscle development	0.0352996593287968
GO:0007275	multicellular organismal development	0.0352996593287968
GO:0019222	regulation of metabolic process	0.0354612481091163
GO:0016070	RNA metabolic process	0.0365458237090462
GO:0000122	negative regulation of transcription from RNA polymerase II promoter	0.0370658451526354
GO:0016564	transcription repressor activity	0.0396495844999568
GO:0007517	muscle development	0.0417780806289334
GO:0009628	response to abiotic stimulus	0.0417780806289334
GO:0042802	identical protein binding	0.041929498409596
GO:0008284	positive regulation of cell proliferation	0.042074881854482
GO:0007420	brain development	0.0427983996470997
GO:0045892	negative regulation of transcription, DNA-dependent	0.0427983996470997
GO:0010467	gene expression	0.0427983996470997
GO:0046983	protein dimerization activity	0.0427983996470997
GO:0048598	embryonic morphogenesis	0.0427983996470997
GO:0035295	tube development	0.0427983996470997
GO:0003676	nucleic acid binding	0.0427983996470997
GO:0032502	developmental process	0.0448239364889525
GO:0007417	central nervous system development	0.0468822209526583
GO:0006139	nucleobase, nucleoside, nucleotide and nucleic acid metabolic process	0.0468822209526583
GO:0016481	negative regulation of transcription	0.0468822209526583
GO:0045934	negative regulation of nucleobase, nucleoside, nucleotide and nucleic acid metabolic process	0.0494229147682189

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)	3.12e-15	23
neuroblast (sensu Vertebrata)	3.12e-15	23
neuron	2.45e-08	33
neuronal stem cell	2.45e-08	33
neuroblast	2.45e-08	33
electrically signaling cell	2.45e-08	33

Uber Anatomy

Ontology term	p-value	n
regional part of nervous system	1.30e-17	54
neural tube	5.49e-16	52
neural rod	5.49e-16	52
future spinal cord	5.49e-16	52
neural keel	5.49e-16	52
central nervous system	1.64e-14	73
neurectoderm	2.24e-14	64
neural plate	2.24e-14	64
presumptive neural plate	2.24e-14	64
gray matter	8.10e-14	34
nervous system	1.02e-13	75
brain	2.88e-13	47
future brain	2.88e-13	47
regional part of brain	1.78e-12	46
ectoderm-derived structure	1.83e-12	95
ectoderm	1.83e-12	95
presumptive ectoderm	1.83e-12	95
anterior neural tube	2.47e-12	40
ecto-epithelium	3.31e-12	73
pre-chordal neural plate	4.45e-12	49
regional part of forebrain	1.61e-11	39
forebrain	1.61e-11	39
future forebrain	1.61e-11	39
brain grey matter	1.00e-10	29
regional part of telencephalon	1.00e-10	29
telencephalon	1.00e-10	29
basal ganglion	5.54e-08	8
nuclear complex of neuraxis	5.54e-08	8
aggregate regional part of brain	5.54e-08	8
collection of basal ganglia	5.54e-08	8
cerebral subcortex	5.54e-08	8
structure with developmental contribution from neural crest	1.75e-07	92

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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