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Coexpression cluster:C4018

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Full id: C4018_occipital_Osteoblast_brain_Dendritic_Monocytederived_submaxillary_Adipocyte



Phase1 CAGE Peaks

Hg19::chr20:23614485..23614564,-p@chr20:23614485..23614564
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Hg19::chr20:23615923..23615953,-p@chr20:23615923..23615953
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Hg19::chr20:23615955..23616000,-p@chr20:23615955..23616000
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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 organism1.81e-28115
multi-cellular organism1.55e-26659
anatomical system1.21e-24625
anatomical group2.15e-24626
embryonic structure5.22e-23605
developing anatomical structure5.22e-23605
germ layer8.32e-23604
embryonic tissue8.32e-23604
presumptive structure8.32e-23604
epiblast (generic)8.32e-23604
embryo3.18e-22612
organ3.56e-20511
bone marrow6.06e-1580
mesoderm9.24e-14448
mesoderm-derived structure9.24e-14448
presumptive mesoderm9.24e-14448
musculoskeletal system2.37e-13167
immune system2.58e-13115
bone element5.47e-1386
lateral plate mesoderm8.83e-13216
neural tube3.16e-1257
neural rod3.16e-1257
future spinal cord3.16e-1257
neural keel3.16e-1257
skeletal element1.17e-11101
skeletal system1.17e-11101
hematopoietic system1.32e-10102
blood island1.32e-10102
hemolymphoid system1.78e-10112
regional part of brain2.95e-1059
anatomical conduit6.20e-10241
anterior neural tube4.91e-0942
tube6.97e-09194
regional part of forebrain1.55e-0841
forebrain1.55e-0841
future forebrain1.55e-0841
neural plate3.54e-0886
presumptive neural plate3.54e-0886
anatomical cluster3.85e-08286
central nervous system5.87e-0882
tissue1.02e-07787
gray matter1.18e-0734
brain grey matter1.18e-0734
brain1.21e-0769
future brain1.21e-0769
telencephalon2.66e-0734
regional part of telencephalon3.17e-0733
neurectoderm3.89e-0790
cerebral hemisphere4.98e-0732


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
NR3C1#290829.982015554115360.01278474365547170.046051798393937



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.