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Coexpression cluster:C2975

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Full id: C2975_CD14CD16_CD14_smallcell_cerebellum_eye_pineal_merkel



Phase1 CAGE Peaks

Hg19::chr10:105314881..105314945,+p3@NEURL
Hg19::chr10:105315073..105315096,+p4@NEURL
Hg19::chr10:105315102..105315121,+p9@NEURL


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 organism2.80e-37115
neural tube1.51e-2157
neural rod1.51e-2157
future spinal cord1.51e-2157
neural keel1.51e-2157
regional part of forebrain8.53e-1941
forebrain8.53e-1941
future forebrain8.53e-1941
anterior neural tube6.54e-1842
regional part of brain4.15e-1759
brain4.16e-1769
future brain4.16e-1769
central nervous system1.54e-1582
telencephalon2.47e-1534
gray matter2.65e-1534
brain grey matter2.65e-1534
cerebral hemisphere3.38e-1532
regional part of cerebral cortex7.88e-1522
regional part of telencephalon1.01e-1433
regional part of nervous system1.39e-1494
nervous system1.39e-1494
neocortex5.70e-1420
organ1.62e-13511
neural plate3.49e-1386
presumptive neural plate3.49e-1386
neurectoderm2.39e-1290
cerebral cortex8.91e-1225
pallium8.91e-1225
pre-chordal neural plate2.29e-1161
multi-cellular organism2.60e-10659
embryo3.26e-10612
anatomical system3.38e-09625
anterior region of body3.67e-09129
craniocervical region3.67e-09129
anatomical group4.74e-09626
hematopoietic system7.27e-09102
blood island7.27e-09102
head9.40e-09123
embryonic structure1.67e-08605
developing anatomical structure1.67e-08605
germ layer3.10e-08604
embryonic tissue3.10e-08604
presumptive structure3.10e-08604
epiblast (generic)3.10e-08604
hemolymphoid system1.82e-07112
bone element4.33e-0786
ectoderm-derived structure7.71e-07169


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
E2F1#186934.907389214879320.008460985347239390.0323316691185955
EGR1#195834.988179094810140.008056488137383440.0318849355633101
FOXA1#3169311.08141974938550.000734755275698670.00579235403371779
FOXA2#3170324.63046375266526.68983856509345e-050.00107011801179322
MYC#460935.22228187160940.007020843755740150.0293030372459635
TRIM28#10155318.59052504526250.0001555969297255280.00196474280541704



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.