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|full_id=C3342_tenocyte_skin_umbilical_Fibroblast_trachea_heart_Synoviocyte
|full_id=C3342_tenocyte_skin_umbilical_Fibroblast_trachea_heart_Synoviocyte
|id=C3342
|id=C3342
|ontology_enrichment_celltype=CL:0000055!4.26e-21!180;CL:0000057!8.58e-16!75;CL:0000680!6.24e-10!57;CL:0000056!6.24e-10!57;CL:0000355!6.24e-10!57;CL:0000183!5.89e-09!59;CL:0000187!7.55e-09!54;CL:0002620!1.19e-07!23;CL:0000393!3.45e-07!60;CL:0000211!3.45e-07!60;CL:0000192!4.07e-07!42;CL:0000514!4.07e-07!42;CL:0000499!4.70e-07!27
|ontology_enrichment_disease=
|ontology_enrichment_uberon=UBERON:0000481!3.10e-16!347;UBERON:0000475!3.07e-15!365;UBERON:0007023!1.14e-14!115;UBERON:0000468!1.31e-14!659;UBERON:0000914!3.66e-14!83;UBERON:0002329!3.66e-14!83;UBERON:0003077!3.66e-14!83;UBERON:0003059!3.66e-14!83;UBERON:0007282!3.66e-14!83;UBERON:0009618!3.66e-14!83;UBERON:0007285!3.66e-14!83;UBERON:0004290!2.99e-12!70;UBERON:0002385!5.36e-12!63;UBERON:0001015!5.36e-12!63;UBERON:0000383!5.36e-12!63;UBERON:0005256!1.12e-11!143;UBERON:0007100!2.15e-11!27;UBERON:0000479!2.27e-11!787;UBERON:0001134!2.55e-11!61;UBERON:0002036!2.55e-11!61;UBERON:0003082!2.55e-11!61;UBERON:0000948!2.90e-10!24;UBERON:0005498!2.90e-10!24;UBERON:0004140!2.90e-10!24;UBERON:0009881!2.90e-10!24;UBERON:0004141!2.90e-10!24;UBERON:0003084!2.90e-10!24;UBERON:0007005!2.90e-10!24;UBERON:0004139!2.90e-10!24;UBERON:0004291!2.90e-10!24;UBERON:0000477!5.60e-10!286;UBERON:0000486!6.34e-10!82;UBERON:0003104!9.54e-10!238;UBERON:0009142!9.54e-10!238;UBERON:0000467!1.16e-09!625;UBERON:0000480!1.81e-09!626;UBERON:0000062!4.27e-09!511;UBERON:0003103!9.12e-09!69;UBERON:0003102!2.94e-08!95;UBERON:0000922!3.29e-08!612;UBERON:0000119!4.09e-08!312;UBERON:0002100!8.14e-08!216;UBERON:0002050!8.45e-08!605;UBERON:0005423!8.45e-08!605;UBERON:0000483!8.68e-08!309;UBERON:0000923!1.69e-07!604;UBERON:0005291!1.69e-07!604;UBERON:0006598!1.69e-07!604;UBERON:0002532!1.69e-07!604
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Revision as of 14:35, 21 May 2012


Full id: C3342_tenocyte_skin_umbilical_Fibroblast_trachea_heart_Synoviocyte



Phase1 CAGE Peaks

Hg19::chr12:91576471..91576491,-p5@DCN
Hg19::chr12:91576497..91576508,-p8@DCN
Hg19::chr12:91576561..91576613,-p1@DCN


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
multi-tissue structure3.10e-16347
organism subdivision3.07e-15365
adult organism1.14e-14115
multi-cellular organism1.31e-14659
somite3.66e-1483
paraxial mesoderm3.66e-1483
presomitic mesoderm3.66e-1483
presumptive segmental plate3.66e-1483
trunk paraxial mesoderm3.66e-1483
presumptive paraxial mesoderm3.66e-1483
dermomyotome2.99e-1270
muscle tissue5.36e-1263
musculature5.36e-1263
musculature of body5.36e-1263
trunk mesenchyme1.12e-11143
primary circulatory organ2.15e-1127
tissue2.27e-11787
skeletal muscle tissue2.55e-1161
striated muscle tissue2.55e-1161
myotome2.55e-1161
heart2.90e-1024
primitive heart tube2.90e-1024
primary heart field2.90e-1024
anterior lateral plate mesoderm2.90e-1024
heart tube2.90e-1024
heart primordium2.90e-1024
cardiac mesoderm2.90e-1024
cardiogenic plate2.90e-1024
heart rudiment2.90e-1024
anatomical cluster5.60e-10286
multilaminar epithelium6.34e-1082
mesenchyme9.54e-10238
entire embryonic mesenchyme9.54e-10238
anatomical system1.16e-09625
anatomical group1.81e-09626
organ4.27e-09511
compound organ9.12e-0969
surface structure2.94e-0895
embryo3.29e-08612
cell layer4.09e-08312
trunk8.14e-08216
embryonic structure8.45e-08605
developing anatomical structure8.45e-08605
epithelium8.68e-08309
germ layer1.69e-07604
embryonic tissue1.69e-07604
presumptive structure1.69e-07604
epiblast (generic)1.69e-07604


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


No analysis results for this cluster

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.