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Coexpression cluster:C2243

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Full id: C2243_extraskeletal_pineal_Neutrophils_cerebellum_small_large_Prostate



Phase1 CAGE Peaks

Hg19::chr12:81206226..81206230,-p@chr12:81206226..81206230
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Hg19::chr12:81273421..81273425,-p@chr12:81273421..81273425
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Hg19::chr12:81331460..81331505,-p1@LIN7A
Hg19::chr12:81331512..81331533,-p3@LIN7A


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 organism7.61e-23115
regional part of nervous system2.64e-2094
nervous system2.64e-2094
central nervous system1.07e-1982
regional part of brain9.82e-1959
neural tube4.01e-1857
neural rod4.01e-1857
future spinal cord4.01e-1857
neural keel4.01e-1857
brain1.30e-1669
future brain1.30e-1669
neurectoderm7.82e-1690
regional part of forebrain8.58e-1641
forebrain8.58e-1641
future forebrain8.58e-1641
anterior neural tube1.42e-1542
neural plate3.07e-1486
presumptive neural plate3.07e-1486
multi-cellular organism3.71e-14659
gray matter3.55e-1334
brain grey matter3.55e-1334
cerebral hemisphere4.25e-1332
telencephalon6.22e-1334
regional part of telencephalon1.35e-1233
hematopoietic system3.15e-12102
blood island3.15e-12102
pre-chordal neural plate4.08e-1261
cerebral cortex9.30e-1225
pallium9.30e-1225
ectoderm2.36e-11173
presumptive ectoderm2.36e-11173
head3.19e-11123
regional part of cerebral cortex5.68e-1122
hemolymphoid system6.82e-11112
ectoderm-derived structure3.53e-10169
anterior region of body3.60e-10129
craniocervical region3.60e-10129
embryo3.75e-10612
neocortex5.35e-1020
skeletal element6.55e-10101
skeletal system6.55e-10101
bone marrow7.35e-1080
bone element1.50e-0986
anatomical system3.42e-09625
anatomical group4.49e-09626
embryonic structure4.88e-09605
developing anatomical structure4.88e-09605
germ layer9.01e-09604
embryonic tissue9.01e-09604
presumptive structure9.01e-09604
epiblast (generic)9.01e-09604
immune system2.46e-08115
organ5.14e-08511


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
CTBP2#1488231.35850016966410.001492676882047230.0095376984328009



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.