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Coexpression cluster:C529

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Full id: C529_testis_temporal_amygdala_occipital_insula_brain_putamen



Phase1 CAGE Peaks

  Short description
Hg19::chr11:125774362..125774414,+ p1@DDX25
Hg19::chr12:124457511..124457524,- p6@CCDC92
Hg19::chr12:124457526..124457542,- p7@CCDC92
Hg19::chr12:124457547..124457562,- p8@CCDC92
Hg19::chr12:31882027..31882048,- p3@AMN1
Hg19::chr13:37006421..37006487,+ p2@CCNA1
Hg19::chr13:50510622..50510649,- p4@SPRYD7
Hg19::chr14:105940901..105940956,+ p2@CRIP2
Hg19::chr15:91446123..91446133,+ p14@MAN2A2
Hg19::chr15:91446139..91446156,+ p11@MAN2A2
Hg19::chr1:145516574..145516603,+ p2@PEX11B
Hg19::chr1:244615425..244615441,- p9@ADSS
Hg19::chr6:43478068..43478103,- p1@LRRC73
Hg19::chr9:90589429..90589488,- p1@CDK20
Hg19::chr9:99212366..99212385,+ p2@HABP4
Hg19::chrX:71289516..71289537,+ p@chrX:71289516..71289537
+


Enriched pathways on this co-expression clusterSummary:
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.
Analyst: Emmanuel Dimont

link to source dataset
data


No results for this coexpression

Enriched Gene Ontology terms on this co-expression clusterSummary: 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.
Analyst: Erik Arner

link to source dataset
data


GO IDGO nameFDR corrected p-value
GO:0006167AMP biosynthetic process0.0180732803962082
GO:0033391chromatoid body0.0180732803962082
GO:0046033AMP metabolic process0.0180732803962082
GO:0004572mannosyl-oligosaccharide 1,3-1,6-alpha-mannosidase activity0.0180732803962082
GO:0004019adenylosuccinate synthase activity0.0180732803962082
GO:0007141male meiosis I0.0180732803962082
GO:0005737cytoplasm0.0180732803962082
GO:0007283spermatogenesis0.0180732803962082
GO:0048232male gamete generation0.0180732803962082
GO:0007276gamete generation0.022917850838468
GO:0016559peroxisome fission0.022917850838468
GO:0007140male meiosis0.0245072039266199
GO:0048285organelle fission0.0254315348049321
GO:0019953sexual reproduction0.0254315348049321
GO:0004559alpha-mannosidase activity0.0280008139512107
GO:0006013mannose metabolic process0.0373146430493189
GO:0005779integral to peroxisomal membrane0.0373146430493189
GO:0031231intrinsic to peroxisomal membrane0.0373146430493189
GO:0004004ATP-dependent RNA helicase activity0.0374514524468862
GO:0006406mRNA export from nucleus0.0374514524468862
GO:0008186RNA-dependent ATPase activity0.0374514524468862
GO:0007286spermatid development0.0374514524468862
GO:0015924mannosyl-oligosaccharide mannosidase activity0.0374514524468862
GO:0009167purine ribonucleoside monophosphate metabolic process0.0374514524468862
GO:0048515spermatid differentiation0.0374514524468862
GO:0009168purine ribonucleoside monophosphate biosynthetic process0.0374514524468862
GO:0009127purine nucleoside monophosphate biosynthetic process0.0374514524468862
GO:0009126purine nucleoside monophosphate metabolic process0.0374514524468862
GO:0007031peroxisome organization and biogenesis0.0405746259930195
GO:0006405RNA export from nucleus0.0405746259930195
GO:0003724RNA helicase activity0.0405746259930195
GO:0009161ribonucleoside monophosphate metabolic process0.0419160099579801
GO:0009156ribonucleoside monophosphate biosynthetic process0.0419160099579801
GO:0015923mannosidase activity0.0431412155542507
GO:0009124nucleoside monophosphate biosynthetic process0.0442251507911105
GO:0009123nucleoside monophosphate metabolic process0.0442251507911105
GO:0051168nuclear export0.0479907101573285
GO:0031903microbody membrane0.0479907101573285
GO:0005778peroxisomal membrane0.0479907101573285
GO:0044439peroxisomal part0.0479907101573285
GO:0044438microbody part0.0479907101573285
GO:0000079regulation of cyclin-dependent protein kinase activity0.0488329871421061



Enriched sample ontology terms on this co-expression clusterSummary: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. Analyst: Hideya Kawaji

links to source dataset

cell_data
uberon_data


Cell Type
Ontology termp-valuen
neurectodermal cell1.18e-0859
ectodermal cell6.60e-0871
embryonic cell2.24e-07248
neural cell2.55e-0725
epithelial cell3.04e-07254
migratory neural crest cell7.93e-0741
Uber Anatomy
Ontology termp-valuen
regional part of nervous system1.85e-3894
nervous system1.85e-3894
ectoderm4.18e-38173
presumptive ectoderm4.18e-38173
neurectoderm2.87e-3690
ectoderm-derived structure3.71e-36169
neural plate2.64e-3486
presumptive neural plate2.64e-3486
central nervous system1.24e-3382
neural tube3.71e-3157
neural rod3.71e-3157
future spinal cord3.71e-3157
neural keel3.71e-3157
brain9.51e-2869
future brain9.51e-2869
regional part of brain1.15e-2559
pre-chordal neural plate4.03e-2561
head1.79e-24123
regional part of forebrain2.38e-2441
forebrain2.38e-2441
future forebrain2.38e-2441
anterior neural tube1.91e-2342
adult organism2.42e-23115
anterior region of body3.47e-23129
craniocervical region3.47e-23129
organism subdivision9.30e-23365
epithelium1.17e-21309
tube1.45e-21194
cell layer2.40e-21312
multi-cellular organism7.97e-21659
anatomical conduit1.42e-20241
telencephalon2.19e-2034
gray matter2.27e-2034
brain grey matter2.27e-2034
regional part of telencephalon1.00e-1933
cerebral hemisphere2.28e-1932
embryo2.53e-19612
anatomical cluster2.67e-19286
multi-tissue structure1.31e-18347
embryonic structure9.88e-17605
developing anatomical structure9.88e-17605
germ layer2.47e-16604
embryonic tissue2.47e-16604
presumptive structure2.47e-16604
epiblast (generic)2.47e-16604
anatomical system1.77e-15625
anatomical group3.52e-15626
cerebral cortex5.23e-1525
pallium5.23e-1525
organ part1.59e-14219
regional part of cerebral cortex3.32e-1422
neocortex6.11e-1320
organ2.02e-10511
posterior neural tube8.55e-0915
chordal neural plate8.55e-0915
segmental subdivision of nervous system1.27e-0713
segmental subdivision of hindbrain3.20e-0712
hindbrain3.20e-0712
presumptive hindbrain3.20e-0712
basal ganglion5.05e-079
nuclear complex of neuraxis5.05e-079
aggregate regional part of brain5.05e-079
collection of basal ganglia5.05e-079
cerebral subcortex5.05e-079
nucleus of brain7.75e-079
neural nucleus7.75e-079


Overrepresented TFBS (DNA) motifs on this co-expression clusterSummary: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. Analyst: Michiel de Hoon

link to source data
Novel motifs
data

Jaspar motifs
data


Novel motifs



JASPAR motifs

Motifs-log10(p-value)

{{{tfbs_overrepresentation_jaspar}}}



ENCODE TF ChIP-seq peak enrichment analysisSummary: 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.
Analyst: Erik Arner

link to source dataset

data


No analysis results for this cluster

Relative expression of the co-expression clusterSummary:Co-expression clusters are compared against FANTOM5 samples to obtain relative expression.
Analyst:NA

link to data source
data


This analysis result is provided for C0 - C305 clusters.