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Coexpression cluster:C676

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Full id: C676_serous_CD8_CD4_Natural_gall_cerebellum_Basophils



Phase1 CAGE Peaks

Hg19::chr10:73819242..73819255,-p@chr10:73819242..73819255
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Hg19::chr10:73821340..73821373,-p@chr10:73821340..73821373
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Hg19::chr10:73822482..73822493,-p@chr10:73822482..73822493
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Hg19::chr10:73822528..73822532,-p@chr10:73822528..73822532
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Hg19::chr10:73823970..73824002,-p@chr10:73823970..73824002
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Hg19::chr10:73848088..73848099,-p9@SPOCK2
Hg19::chr10:73848196..73848207,-p6@SPOCK2
Hg19::chr10:73848209..73848220,-p7@SPOCK2
Hg19::chr10:73848236..73848250,-p2@SPOCK2
Hg19::chr10:73848262..73848315,-p1@SPOCK2
Hg19::chr10:73848333..73848352,-p3@SPOCK2
Hg19::chr10:73848353..73848364,-p5@SPOCK2


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 organism1.72e-45115
neural tube1.02e-2957
neural rod1.02e-2957
future spinal cord1.02e-2957
neural keel1.02e-2957
regional part of brain2.15e-2559
central nervous system4.28e-2482
regional part of forebrain5.02e-2341
forebrain5.02e-2341
future forebrain5.02e-2341
anterior neural tube5.54e-2342
regional part of nervous system1.22e-2094
nervous system1.22e-2094
brain1.27e-2069
future brain1.27e-2069
gray matter5.51e-2034
brain grey matter5.51e-2034
telencephalon7.59e-2034
neural plate1.54e-1986
presumptive neural plate1.54e-1986
regional part of telencephalon3.63e-1933
cerebral hemisphere4.72e-1932
neurectoderm1.05e-1890
cerebral cortex7.01e-1525
pallium7.01e-1525
regional part of cerebral cortex1.94e-1422
pre-chordal neural plate1.15e-1361
neocortex2.96e-1320
anterior region of body1.40e-09129
craniocervical region1.40e-09129
head6.53e-08123
posterior neural tube7.03e-0815
chordal neural plate7.03e-0815
ectoderm-derived structure4.37e-07169
ectoderm6.25e-07173
presumptive ectoderm6.25e-07173


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#23512520.88157537960952.22261777511182e-067.96322393876169e-05



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.