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Coexpression cluster:C3646

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Full id: C3646_spinal_alveolar_glioblastoma_somatostatinoma_Endothelial_rhabdomyosarcoma_nonsmall



Phase1 CAGE Peaks

Hg19::chr17:46692198..46692237,-p12@HOXB8
Hg19::chr17:46692287..46692317,-p7@HOXB8
Hg19::chr17:46692318..46692362,-p5@HOXB8


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><br>


Uber Anatomy
Ontology termp-valuen
cavitated compound organ5.01e-2531
kidney1.42e-1826
kidney mesenchyme1.42e-1826
upper urinary tract1.42e-1826
kidney rudiment1.42e-1826
kidney field1.42e-1826
excretory tube2.41e-1516
kidney epithelium2.41e-1516
abdominal segment of trunk7.45e-1560
abdomen7.45e-1560
nephron epithelium7.67e-1415
renal tubule7.67e-1415
nephron tubule7.67e-1415
nephron7.67e-1415
uriniferous tubule7.67e-1415
nephrogenic mesenchyme7.67e-1415
nephron tubule epithelium2.26e-1210
cortex of kidney2.44e-1212
renal parenchyma2.44e-1212
urinary system structure7.54e-1247
renal system1.81e-1148
abdomen element6.95e-1154
abdominal segment element6.95e-1154
subdivision of trunk1.52e-09112
cortex2.26e-0915
parenchyma2.26e-0915
trunk region element4.87e-09101
intervertebral cartilage8.26e-095
symphysis8.26e-095
nonsynovial joint8.26e-095
fibrous joint8.26e-095
cartilaginous joint8.26e-095
developing mesenchymal condensation8.26e-095
pre-cartilage condensation8.26e-095
cartilaginous condensation8.26e-095
cartilage element8.26e-095
post-cranial axial skeletal system8.26e-095
vertebral column8.26e-095
intervertebral disk8.26e-095
intervertebral joint8.26e-095
mesonephros8.57e-099
pronephros8.57e-099
nephrogenic cord8.57e-099
pronephric mesoderm8.57e-099
rostral part of nephrogenic cord8.57e-099
presumptive pronephric mesoderm8.57e-099
body cavity precursor2.03e-0854
compound organ2.03e-0868
intraembryonic coelom9.04e-0812
articulation1.67e-078
skeletal joint1.67e-078
articular system1.67e-078
mesonephric epithelium2.66e-078
mesonephric tubule2.66e-078
nephric duct2.66e-078
renal duct2.66e-078
mesonephric duct2.66e-078
pronephric duct2.66e-078
urogenital ridge6.09e-0711
omentum6.62e-076
peritoneum6.62e-076
abdominal cavity6.62e-076
visceral peritoneum6.62e-076
anatomical cavity8.02e-0761
spinal cord8.06e-073
dorsal region element8.06e-073
dorsum8.06e-073


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
SUZ12#23512350.11578091106297.93834897779404e-060.000222093016043887



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.