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Coexpression cluster:C3100

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Full id: C3100_Neutrophils_occipital_Eosinophils_CD4_temporal_pineal_parietal



Phase1 CAGE Peaks

Hg19::chr11:121322987..121322998,+p5@SORL1
Hg19::chr11:121323000..121323046,+p1@SORL1
Hg19::chr11:121323108..121323117,+p8@SORL1


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 organism8.32e-35114
neural tube1.48e-2856
neural rod1.48e-2856
future spinal cord1.48e-2856
neural keel1.48e-2856
regional part of nervous system9.96e-2753
regional part of brain9.96e-2753
central nervous system3.24e-2681
nervous system3.50e-2389
regional part of forebrain6.13e-2341
forebrain6.13e-2341
anterior neural tube6.13e-2341
future forebrain6.13e-2341
brain1.55e-1968
future brain1.55e-1968
telencephalon1.25e-1834
brain grey matter1.85e-1834
gray matter1.85e-1834
cerebral hemisphere4.09e-1732
regional part of telencephalon4.88e-1732
neural plate2.89e-1682
presumptive neural plate2.89e-1682
regional part of cerebral cortex2.82e-1522
neurectoderm1.87e-1486
neocortex4.84e-1420
pre-chordal neural plate2.32e-1361
cerebral cortex4.81e-1325
pallium4.81e-1325
organ system subdivision5.52e-13223
ecto-epithelium2.30e-12104
ectoderm-derived structure1.37e-07171
ectoderm1.37e-07171
presumptive ectoderm1.37e-07171
neural nucleus5.71e-079
nucleus of brain5.71e-079
posterior neural tube6.64e-0715
chordal neural plate6.64e-0715
basal ganglion8.25e-079
nuclear complex of neuraxis8.25e-079
aggregate regional part of brain8.25e-079
collection of basal ganglia8.25e-079
cerebral subcortex8.25e-079


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
CTCF#1066435.360256373075030.0064925092527670.0278297218899952
CTCFL#140690319.74647435897440.0001298372005551160.00171104951277928
E2F1#186934.907389214879320.008460985347239390.032362455545883
GATA3#2625327.2365163572064.94721007899563e-050.000848828114736692
JUND#372736.994663941871030.002921845042734990.0156161186437848
NFKB1#479035.488063424193840.006049381815655430.0268618787179098
PAX5#507936.669565531177830.003370290999677260.0172315965004794
RAD21#5885310.35503389545630.0009004912073565420.00661739383655431
SMC3#9126315.04493284493280.0002935825420371870.00308062565134349
TAF7#6879311.43306940492390.0006690181981945830.00540592584922585
USF1#739136.361499277207960.00388404057290560.0189536171102555
USF2#7392312.99219738506960.0004558979393427810.00420465603029148
YY1#752834.911170749853860.008441455341808260.0327958170687863
ZEB1#6935316.88843201754390.0002075486917327580.00241921627409347
ZNF143#7702313.50087655222790.0004062804962997170.00387714992261021



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.