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Coexpression cluster:C3143

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Full id: C3143_kidney_uterus_ovary_spleen_cervix_Renal_diaphragm



Phase1 CAGE Peaks

Hg19::chr11:32457136..32457145,+p6@WT1-AS
Hg19::chr11:32457397..32457404,-p15@WT1
Hg19::chr11:32457413..32457431,-p2@WT1


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


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


No GOStat results

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>disease_data<br>


Cell Type
Ontology termp-valuen
mesothelial cell9.50e-1019
kidney tubule cell9.71e-0912
nephron tubule epithelial cell9.71e-0912
Uber Anatomy
Ontology termp-valuen
body cavity precursor8.83e-1363
compound organ5.42e-1169
anatomical cavity1.39e-1070
abdominal segment of trunk3.25e-1061
abdomen3.25e-1061
reproductive organ1.22e-0948
abdomen element1.82e-0955
abdominal segment element1.82e-0955
intraembryonic coelom3.07e-0921
immaterial anatomical entity7.74e-09126
renal tubule9.71e-0912
nephron tubule9.71e-0912
nephron tubule epithelium9.71e-0912
anatomical space1.16e-08104
cavitated compound organ1.16e-0832
kidney1.36e-0827
kidney mesenchyme1.36e-0827
kidney rudiment1.36e-0827
kidney field1.36e-0827
gonad1.71e-0821
indifferent external genitalia1.71e-0821
indifferent gonad1.71e-0821
gonad primordium1.71e-0821
external genitalia5.98e-0822
mesonephros9.39e-0818
pronephros9.39e-0818
nephrogenic cord9.39e-0818
pronephric mesoderm9.39e-0818
rostral part of nephrogenic cord9.39e-0818
presumptive pronephric mesoderm9.39e-0818
body cavity or lining9.40e-0849
body cavity1.26e-0746
reproductive structure2.62e-0759
reproductive system2.62e-0759
excretory tube5.53e-0717
mesonephric epithelium5.53e-0717
mesonephric tubule5.53e-0717
nephric duct5.53e-0717
kidney epithelium5.53e-0717
renal duct5.53e-0717
mesonephric duct5.53e-0717
pronephric duct5.53e-0717
Disease
Ontology termp-valuen
myeloid leukemia4.06e-2331
leukemia2.01e-1839
hematologic cancer4.22e-1351
immune system cancer4.22e-1351
organ system cancer1.15e-12137
ovarian cancer3.10e-1014
disease of cellular proliferation2.87e-09239
cancer2.51e-08235
chronic leukemia6.54e-088


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


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


(#promoters = Number of promoters in this coexpression cluster that have ChIP signal of the TF)

TF#promotersEnrichmentp-valueq-value
CCNT2#90536.336201576962630.003930750035764890.0189207541588814
CTBP2#1488241.81133355955210.0007543408259914850.00593287156606105
CTCF#1066435.360256373075030.0064925092527670.0278377195931412
E2F6#187635.017155731697390.00791769806886330.0320497836755945
HMGN3#932438.178547723350590.001827766942164210.0108337202992445
MAX#414936.452555509007120.003721913834265510.0185800372322956
SUZ12#23512350.11578091106297.93834897779404e-060.000221440499169827
ZNF263#1012738.221841637010680.001799043925565870.0108953521914859



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


This analysis result is provided for C0 - C305 clusters.