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Coexpression cluster:C538

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Full id: C538_left_skeletal_heart_seminal_ductus_adipose_mature



Phase1 CAGE Peaks

  Short description
Hg19::chr12:10856713..10856723,- p23@CSDA
Hg19::chr17:58042483..58042495,+ p2@ENST00000501190
p2@uc002iye.1
Hg19::chr5:79026919..79026926,+ p@chr5:79026919..79026926
+
Hg19::chr5:79029312..79029328,+ p9@CMYA5
Hg19::chr7:95214018..95214046,- p@chr7:95214018..95214046
-
Hg19::chr7:95218981..95219000,- p12@PDK4
Hg19::chr7:95222151..95222232,- p7@PDK4
Hg19::chr7:95223041..95223065,- p@chr7:95223041..95223065
-
Hg19::chr7:95224363..95224402,- p@chr7:95224363..95224402
-
Hg19::chr7:95224413..95224447,- p@chr7:95224413..95224447
-
Hg19::chr7:95224469..95224481,- p@chr7:95224469..95224481
-
Hg19::chr7:95225490..95225542,- p3@PDK4
Hg19::chr7:95225580..95225618,- p4@PDK4
Hg19::chr7:95225631..95225666,- p2@PDK4
Hg19::chr7:95225695..95225721,- p8@PDK4
Hg19::chr7:95225729..95225740,- p6@PDK4
Hg19::chr7:95225768..95225967,- p1@PDK4


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:0004740pyruvate dehydrogenase (acetyl-transferring) kinase activity0.0252486593058398
GO:0009409response to cold0.0252486593058398
GO:0018106peptidyl-histidine phosphorylation0.0252486593058398
GO:0018202peptidyl-histidine modification0.0252486593058398
GO:0004673protein histidine kinase activity0.0419458539477759
GO:0009266response to temperature stimulus0.0419458539477759
GO:0016775phosphotransferase activity, nitrogenous group as acceptor0.0419458539477759



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


Uber Anatomy
Ontology termp-valuen
adult organism5.93e-51115
neural tube2.15e-1857
neural rod2.15e-1857
future spinal cord2.15e-1857
neural keel2.15e-1857
multi-cellular organism3.04e-18659
regional part of brain2.72e-1659
organ4.95e-16511
anatomical system6.00e-16625
anatomical group1.28e-15626
embryo2.20e-15612
anterior neural tube4.85e-1542
embryonic structure1.08e-14605
developing anatomical structure1.08e-14605
regional part of forebrain1.98e-1441
forebrain1.98e-1441
future forebrain1.98e-1441
germ layer2.13e-14604
embryonic tissue2.13e-14604
presumptive structure2.13e-14604
epiblast (generic)2.13e-14604
central nervous system1.76e-1382
brain1.32e-1269
future brain1.32e-1269
neural plate1.86e-1286
presumptive neural plate1.86e-1286
gray matter1.19e-1134
brain grey matter1.19e-1134
telencephalon1.91e-1134
regional part of telencephalon3.60e-1133
anatomical cluster1.11e-10286
neurectoderm1.28e-1090
cerebral hemisphere1.51e-1032
regional part of nervous system3.49e-1094
nervous system3.49e-1094
anatomical conduit6.31e-10241
tube1.71e-09194
hemolymphoid system1.99e-09112
immune system8.61e-09115
regional part of cerebral cortex9.65e-0922
hematopoietic system1.19e-08102
blood island1.19e-08102
pre-chordal neural plate1.65e-0861
mesoderm3.04e-08448
mesoderm-derived structure3.04e-08448
presumptive mesoderm3.04e-08448
neocortex5.51e-0820
cerebral cortex6.68e-0825
pallium6.68e-0825
multi-tissue structure7.33e-08347
bone marrow3.40e-0780
anterior region of body5.11e-07129
craniocervical region5.11e-07129
head9.85e-07123


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.