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Coexpression cluster:C3234

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Full id: C3234_neuroectodermal_adipose_Adipocyte_mature_skeletal_breast_colon



Phase1 CAGE Peaks

Hg19::chr12:109592467..109592476,+p11@ACACB
Hg19::chr12:109592477..109592501,+p2@ACACB
Hg19::chr12:109592502..109592517,+p7@ACACB


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><br>uberon_data<br><br>


Uber Anatomy
Ontology termp-valuen
adult organism1.27e-46115
neural tube2.35e-2357
neural rod2.35e-2357
future spinal cord2.35e-2357
neural keel2.35e-2357
central nervous system1.21e-2082
regional part of nervous system1.24e-2094
nervous system1.24e-2094
brain4.07e-2069
future brain4.07e-2069
regional part of brain1.14e-1859
anterior neural tube5.55e-1842
regional part of forebrain2.51e-1741
forebrain2.51e-1741
future forebrain2.51e-1741
neurectoderm2.68e-1790
neural plate1.39e-1686
presumptive neural plate1.39e-1686
telencephalon1.00e-1434
gray matter1.33e-1434
brain grey matter1.33e-1434
regional part of telencephalon2.99e-1433
cerebral hemisphere1.61e-1332
pre-chordal neural plate7.70e-1261
anterior region of body2.10e-11129
craniocervical region2.10e-11129
regional part of cerebral cortex9.93e-1122
head1.91e-10123
cerebral cortex5.78e-1025
pallium5.78e-1025
neocortex9.25e-1020
ectoderm1.12e-09173
presumptive ectoderm1.12e-09173
ectoderm-derived structure4.29e-09169


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
CCNT2#90536.336201576962630.003930750035764890.0189320975366745
E2F1#186934.907389214879320.008460985347239390.0323921132214199
ELF1#199734.258097958807540.01295179875054610.0460406027810852
ESR1#2099330.76860329615453.43136389821584e-050.000674258163999556
HMGN3#932438.178547723350590.001827766942164210.0108398723266717
IRF1#365937.63716375356390.002244692747297240.0127707940205359
NANOG#79923329.24477848101273.99627955670032e-050.000734413937396138
TAF7#6879311.43306940492390.0006690181981945830.00540969275327068



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.