Coexpression cluster:C1321

Full id: C1321_Meningeal_Pericytes_Smooth_Hepatic_spinal_Ciliary_corpus

Phase1 CAGE Peaks

Hg19::chr10:74020629..74020634,-	p@chr10:74020629..74020634 -
Hg19::chr15:80842979..80842998,+	p20@ARNT2
Hg19::chr15:80843484..80843499,+	p5@ARNT2
Hg19::chr1:7740930..7740951,-	p@chr1:7740930..7740951 -
Hg19::chr20:36889098..36889118,-	p2@KIAA1755
Hg19::chr8:36519052..36519065,+	p@chr8:36519052..36519065 +

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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No results for this coexpression

Enriched Gene Ontology terms on this co-expression cluster<b>Summary:</b> Results for GOStat analysis on co-expressed clusters. Each cluster with promoters mapping to at least two different genes was analysed with GOStat (PMID: 14962934) with default parameter. <br><b>Analyst:</b> Erik Arner<br><br>link to source dataset<br>data

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GO ID	GO name	FDR corrected p-value
GO:0017162	aryl hydrocarbon receptor binding	0.00223713646532438
GO:0005061	aryl hydrocarbon receptor nuclear translocator activity	0.00223713646532438
GO:0001666	response to hypoxia	0.0279642058165548
GO:0001701	in utero embryonic development	0.0279642058165548
GO:0009792	embryonic development ending in birth or egg hatching	0.0335570469798658
GO:0043009	chordate embryonic development	0.0335570469798658
GO:0046982	protein heterodimerization activity	0.0335570469798658
GO:0045944	positive regulation of transcription from RNA polymerase II promoter	0.0388702460850112
GO:0005057	receptor signaling protein activity	0.0404405437962485
GO:0005667	transcription factor complex	0.0404405437962485
GO:0045893	positive regulation of transcription, DNA-dependent	0.0404405437962485
GO:0007417	central nervous system development	0.0404405437962485
GO:0009790	embryonic development	0.0404405437962485
GO:0045941	positive regulation of transcription	0.0431021625652498
GO:0045935	positive regulation of nucleobase, nucleoside, nucleotide and nucleic acid metabolic process	0.0431021625652498
GO:0031325	positive regulation of cellular metabolic process	0.0481516991584106
GO:0046983	protein dimerization activity	0.0481516991584106
GO:0009893	positive regulation of metabolic process	0.0481516991584106
GO:0006357	regulation of transcription from RNA polymerase II promoter	0.0481516991584106
GO:0008134	transcription factor binding	0.0481516991584106
GO:0044451	nucleoplasm part	0.0481516991584106

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	1.11e-17	180
contractile cell	4.23e-15	59
muscle cell	3.29e-14	54
muscle precursor cell	3.80e-14	57
myoblast	3.80e-14	57
multi-potent skeletal muscle stem cell	3.80e-14	57
electrically responsive cell	1.42e-11	60
electrically active cell	1.42e-11	60
smooth muscle cell	5.67e-11	42
smooth muscle myoblast	5.67e-11	42
fibroblast	9.19e-11	75
vascular associated smooth muscle cell	1.87e-08	32

Uber Anatomy

Ontology term	p-value	n
regional part of brain	1.20e-27	59
neural plate	4.25e-26	86
presumptive neural plate	4.25e-26	86
neural tube	4.31e-26	57
neural rod	4.31e-26	57
future spinal cord	4.31e-26	57
neural keel	4.31e-26	57
cell layer	1.12e-25	312
organism subdivision	6.03e-25	365
epithelium	4.09e-24	309
neurectoderm	2.57e-23	90
adult organism	1.38e-22	115
brain	1.61e-22	69
future brain	1.61e-22	69
tube	3.87e-21	194
central nervous system	4.84e-21	82
multi-tissue structure	1.14e-20	347
regional part of nervous system	4.04e-19	94
nervous system	4.04e-19	94
anatomical cluster	5.98e-19	286
anterior neural tube	8.64e-18	42
regional part of forebrain	1.16e-17	41
forebrain	1.16e-17	41
future forebrain	1.16e-17	41
head	1.50e-17	123
anterior region of body	2.58e-17	129
craniocervical region	2.58e-17	129
telencephalon	3.40e-17	34
gray matter	3.44e-17	34
brain grey matter	3.44e-17	34
pre-chordal neural plate	4.63e-17	61
regional part of telencephalon	1.17e-16	33
dermomyotome	5.64e-16	70
cerebral hemisphere	6.47e-16	32
anatomical conduit	9.18e-16	241
somite	1.67e-15	83
paraxial mesoderm	1.67e-15	83
presomitic mesoderm	1.67e-15	83
presumptive segmental plate	1.67e-15	83
trunk paraxial mesoderm	1.67e-15	83
presumptive paraxial mesoderm	1.67e-15	83
muscle tissue	3.53e-15	63
musculature	3.53e-15	63
musculature of body	3.53e-15	63
ectoderm-derived structure	7.12e-15	169
skeletal muscle tissue	7.88e-15	61
striated muscle tissue	7.88e-15	61
myotome	7.88e-15	61
anatomical system	3.70e-14	625
anatomical group	3.99e-14	626
organ	1.01e-13	511
multi-cellular organism	1.21e-13	659
ectoderm	1.32e-13	173
presumptive ectoderm	1.32e-13	173
trunk mesenchyme	3.95e-13	143
cerebral cortex	2.09e-12	25
pallium	2.09e-12	25
multilaminar epithelium	1.05e-11	82
regional part of cerebral cortex	3.15e-11	22
organ part	1.41e-10	219
neocortex	1.77e-10	20
posterior neural tube	1.30e-09	15
chordal neural plate	1.30e-09	15
primary circulatory organ	1.47e-09	27
embryo	1.56e-09	612
embryonic structure	2.14e-09	605
developing anatomical structure	2.14e-09	605
germ layer	3.00e-09	604
embryonic tissue	3.00e-09	604
presumptive structure	3.00e-09	604
epiblast (generic)	3.00e-09	604
heart	3.04e-09	24
primitive heart tube	3.04e-09	24
primary heart field	3.04e-09	24
anterior lateral plate mesoderm	3.04e-09	24
heart tube	3.04e-09	24
heart primordium	3.04e-09	24
cardiac mesoderm	3.04e-09	24
cardiogenic plate	3.04e-09	24
heart rudiment	3.04e-09	24
segmental subdivision of nervous system	2.06e-08	13
compound organ	5.83e-08	69
segmental subdivision of hindbrain	9.55e-08	12
hindbrain	9.55e-08	12
presumptive hindbrain	9.55e-08	12
tissue	1.41e-07	787

Overrepresented TFBS (DNA) motifs on this co-expression cluster<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)
{{{tfbs_overrepresentation_jaspar}}}

ENCODE TF ChIP-seq peak enrichment analysis<b>Summary:</b> For each TF and each co-expression cluster, the number of promoters with ENCODE TF ChIP signal was compared with the rest of promoters from the robust set using Fisher's exact test. Clusters with significant ChIP enrichment (q <= 0.05) after Benjamini-Hochberg correction were retained. <br><b>Analyst:</b> Erik Arner<br><br>link to source dataset<br><br>data

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No analysis results for this cluster

Relative expression of the co-expression cluster<b>Summary:</b>Co-expression clusters are compared against FANTOM5 samples to obtain relative expression. <br><b>Analyst:</b>NA<br><br>link to data source<br> data

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This analysis result is provided for C0 - C305 clusters.