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Coexpression cluster:C4291

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Full id: C4291_pleomorphic_Cardiac_breast_aorta_lung_diaphragm_mesothelioma



Phase1 CAGE Peaks

Hg19::chr3:145968857..145968899,-p1@PLSCR4
Hg19::chr3:145968900..145968915,-p3@PLSCR4
Hg19::chr3:145968923..145968935,-p4@PLSCR4


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>


Cell Type
Ontology termp-valuen
fibroblast1.21e-0775
non-terminally differentiated cell1.40e-07180
Uber Anatomy
Ontology termp-valuen
adult organism1.36e-33115
anatomical cluster1.35e-26286
anatomical conduit9.86e-23241
multi-cellular organism2.42e-19659
tube4.96e-19194
regional part of brain1.44e-1859
neural tube2.36e-1857
neural rod2.36e-1857
future spinal cord2.36e-1857
neural keel2.36e-1857
organism subdivision2.90e-18365
brain1.09e-1669
future brain1.09e-1669
multi-tissue structure2.65e-16347
central nervous system3.01e-1682
cell layer7.56e-15312
epithelium1.10e-14309
neurectoderm2.45e-1490
neural plate4.63e-1486
presumptive neural plate4.63e-1486
anatomical system1.54e-13625
anatomical group2.00e-13626
regional part of nervous system2.51e-1394
nervous system2.51e-1394
anterior neural tube4.55e-1342
regional part of forebrain1.81e-1241
forebrain1.81e-1241
future forebrain1.81e-1241
head1.64e-11123
anterior region of body3.87e-11129
craniocervical region3.87e-11129
gray matter3.11e-1034
brain grey matter3.11e-1034
ectoderm3.50e-10173
presumptive ectoderm3.50e-10173
telencephalon6.46e-1034
ectoderm-derived structure7.58e-10169
embryo8.62e-10612
regional part of telencephalon1.07e-0933
embryonic structure1.15e-09605
developing anatomical structure1.15e-09605
splanchnic layer of lateral plate mesoderm1.36e-0984
organ2.07e-09511
germ layer2.53e-09604
embryonic tissue2.53e-09604
presumptive structure2.53e-09604
epiblast (generic)2.53e-09604
cerebral hemisphere3.89e-0932
vasculature4.96e-0879
vascular system4.96e-0879
pre-chordal neural plate1.20e-0761
circulatory system1.59e-07113
epithelial tube2.34e-07118
cardiovascular system2.35e-07110
regional part of cerebral cortex2.74e-0722
vessel3.33e-0769


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


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


This analysis result is provided for C0 - C305 clusters.