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Coexpression cluster:C2914

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Full id: C2914_CD14_breast_small_spinal_osteosarcoma_skin_Macrophage



Phase1 CAGE Peaks

Hg19::chr8:116681150..116681164,-p5@TRPS1
Hg19::chr8:116681194..116681214,-p1@TRPS1
Hg19::chr8:116681221..116681236,-p3@TRPS1
Hg19::chr8:116681247..116681261,-p8@TRPS1


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
bone element5.46e-2082
bone marrow1.68e-1976
skeletal system5.32e-19100
skeletal element9.09e-1990
adult organism1.44e-18114
neural tube1.13e-1556
neural rod1.13e-1556
future spinal cord1.13e-1556
neural keel1.13e-1556
hematopoietic system1.75e-1598
blood island1.75e-1598
regional part of nervous system4.50e-1453
regional part of brain4.50e-1453
regional part of forebrain1.77e-1341
forebrain1.77e-1341
anterior neural tube1.77e-1341
future forebrain1.77e-1341
immune system1.96e-1293
central nervous system2.15e-1181
hemolymphoid system2.21e-11108
brain grey matter2.80e-1134
gray matter2.80e-1134
organ3.67e-11503
nervous system1.10e-1089
brain1.22e-1068
future brain1.22e-1068
telencephalon1.23e-1034
musculoskeletal system1.62e-10167
regional part of telencephalon2.36e-1032
cerebral hemisphere5.89e-1032
neural plate2.36e-0882
presumptive neural plate2.36e-0882
regional part of cerebral cortex1.43e-0722
cerebral cortex1.45e-0725
pallium1.45e-0725
structure with developmental contribution from neural crest2.65e-07132
neurectoderm6.10e-0786
ecto-epithelium9.01e-07104


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#90546.336201576962630.0006203100587215640.00513796194962499
CEBPB#105147.971147625824820.0002476385788090830.00268791576930386
CTCF#1066445.360256373075030.001211145381643620.00820197202136417
E2F1#186944.907389214879320.001724022357361790.0106819631573628
GATA1#2623413.56030814380042.95627390049268e-050.000615285551800627
GATA2#2624412.7449317335543.78864877853583e-050.000724959123821004
GATA3#2625427.2365163572061.81561517799785e-066.79645281630527e-05
HEY1#2346244.040111043105710.00375304636917980.0186667496785775
JUN#3725412.51282919233634.07770316866756e-050.000745442396696081
JUND#372746.994663941871030.000417684217818580.00392712657766967
TAF1#687243.343046285745290.008005664898701650.032340681404692
TBP#690843.706770687096390.005296377814784350.024511383994251



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.