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Coexpression cluster:C1805

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Full id: C1805_heart_diaphragm_adipose_vagina_ductus_thyroid_mature



Phase1 CAGE Peaks

Hg19::chr18:7567180..7567189,+p7@PTPRM
Hg19::chr18:7567266..7567330,+p1@PTPRM
Hg19::chr18:7567336..7567347,+p5@PTPRM
Hg19::chr18:7567351..7567365,+p4@PTPRM
Hg19::chr18:7567378..7567397,+p3@PTPRM


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 organism3.05e-16114
multi-cellular organism1.05e-14656
anatomical cluster6.29e-14373
anatomical conduit6.53e-14240
anatomical system1.72e-13624
anatomical group3.30e-13625
cell layer4.35e-12309
epithelium9.69e-12306
organ2.09e-10503
multi-tissue structure4.55e-10342
tube1.19e-09192
organ system subdivision8.39e-08223
structure with developmental contribution from neural crest3.28e-07132


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#90556.336201576962639.78880505817628e-050.00139055088611381
CTCF#1066455.360256373075030.0002259278299937090.00249795433376169
CTCFL#140690519.74647435897443.32745051287657e-071.65799429443853e-05
E2F1#186954.907389214879320.0003512818099256460.00352832476888099
E2F6#187655.017155731697390.0003144978599297790.00322809257918488
EGR1#195854.988179094810140.0003237398000590710.00330799931301921
HEY1#2346254.040111043105710.0009288852205177990.00674255237320395
RAD21#5885510.35503389545638.39503550283973e-060.000229460641947416
SMARCB1#6598518.25271578115744.93125075403021e-072.31571446717699e-05
SMC3#9126515.04493284493281.29633924985553e-065.15961794648101e-05
TAF1#687253.343046285745290.002394600090870310.0135366516314157
TFAP2A#7020516.5186343730458.12390055913032e-073.53816534818603e-05
TFAP2C#7022510.80922860986026.77323239348459e-060.000197209260647655
USF1#739156.361499277207969.59569864925045e-050.00136833038125214



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.