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Coexpression cluster:C1653

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Full id: C1653_choriocarcinoma_Endothelial_pancreatic_placenta_lung_Lymphatic_adipose



Phase1 CAGE Peaks

Hg19::chr12:10251519..10251526,-p5@CLEC1A
Hg19::chr12:10251539..10251560,-p2@CLEC1A
Hg19::chr12:10251576..10251599,-p1@CLEC1A
Hg19::chr12:10251603..10251619,-p3@CLEC1A
Hg19::chr12:10251621..10251628,-p4@CLEC1A


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
adult organism5.95e-53115
neural tube1.04e-2157
neural rod1.04e-2157
future spinal cord1.04e-2157
neural keel1.04e-2157
anatomical conduit8.90e-18241
regional part of brain1.32e-1759
endothelium2.55e-1718
blood vessel endothelium2.55e-1718
cardiovascular system endothelium2.55e-1718
anterior neural tube3.44e-1742
central nervous system5.40e-1782
neural plate1.15e-1686
presumptive neural plate1.15e-1686
regional part of forebrain2.09e-1641
forebrain2.09e-1641
future forebrain2.09e-1641
neurectoderm2.33e-1690
anatomical cluster1.96e-15286
brain2.42e-1569
future brain2.42e-1569
tube3.62e-15194
regional part of nervous system9.67e-1494
nervous system9.67e-1494
gray matter3.64e-1334
brain grey matter3.64e-1334
telencephalon5.25e-1334
simple squamous epithelium9.27e-1322
regional part of telencephalon1.38e-1233
cerebral hemisphere5.38e-1232
pre-chordal neural plate2.02e-1161
multi-cellular organism4.35e-11659
regional part of cerebral cortex4.67e-1122
squamous epithelium2.36e-1025
neocortex4.86e-1020
anatomical system5.79e-10625
anatomical group7.46e-10626
anterior region of body1.15e-09129
craniocervical region1.15e-09129
endothelial tube5.28e-099
arterial system endothelium5.28e-099
endothelium of artery5.28e-099
cerebral cortex5.39e-0925
pallium5.39e-0925
ectoderm1.37e-08173
presumptive ectoderm1.37e-08173
ectoderm-derived structure1.45e-08169
extraembryonic membrane1.58e-0814
membranous layer1.58e-0814
organ part1.78e-08219
head1.94e-08123
organ2.53e-08511
epithelium2.59e-08309
cell layer3.30e-08312
chorion6.78e-087


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
TAF1#687253.343046285745290.002394600090870310.0135183588589408



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.