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Coexpression cluster:C2999

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Full id: C2999_renal_Cardiac_CD14_Chondrocyte_Myoblast_Fibroblast_Endothelial



Phase1 CAGE Peaks

Hg19::chr10:17279356..17279382,+p@chr10:17279356..17279382
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Hg19::chr10:17279385..17279425,+p@chr10:17279385..17279425
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Hg19::chr10:17279533..17279566,+p@chr10:17279533..17279566
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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>


Cell Type
Ontology termp-valuen
non-terminally differentiated cell2.96e-23180
multi fate stem cell1.18e-17430
somatic stem cell1.65e-16436
somatic cell1.35e-15591
stem cell1.71e-15444
CD14-positive, CD16-negative classical monocyte3.19e-1542
macrophage dendritic cell progenitor1.39e-1365
granulocyte monocyte progenitor cell2.01e-1371
fibroblast3.80e-1375
classical monocyte4.11e-1345
monopoietic cell5.12e-1363
monocyte5.12e-1363
monoblast5.12e-1363
promonocyte5.12e-1363
myeloid lineage restricted progenitor cell3.38e-1270
myeloid leukocyte7.51e-1176
muscle precursor cell5.23e-1057
myoblast5.23e-1057
multi-potent skeletal muscle stem cell5.23e-1057
mesodermal cell1.40e-09119
muscle cell2.55e-0954
contractile cell3.30e-0959
connective tissue cell7.23e-09365
skin fibroblast9.94e-0923
electrically responsive cell9.99e-0960
electrically active cell9.99e-0960
mesenchymal cell6.82e-08358
motile cell8.15e-08390
smooth muscle cell1.12e-0742
smooth muscle myoblast1.12e-0742
vascular associated smooth muscle cell8.40e-0732
Uber Anatomy
Ontology termp-valuen
musculoskeletal system8.23e-24167
lateral plate mesoderm2.14e-17216
skeletal element1.16e-13101
skeletal system1.16e-13101
bone marrow1.46e-1380
vasculature6.37e-1379
vascular system6.37e-1379
bone element9.28e-1386
cardiovascular system1.31e-12110
somite2.09e-1283
paraxial mesoderm2.09e-1283
presomitic mesoderm2.09e-1283
presumptive segmental plate2.09e-1283
trunk paraxial mesoderm2.09e-1283
presumptive paraxial mesoderm2.09e-1283
circulatory system3.75e-12113
hemolymphoid system8.28e-12112
dermomyotome8.55e-1270
vessel4.97e-1169
hematopoietic system1.27e-10102
blood island1.27e-10102
mesoderm2.21e-10448
mesoderm-derived structure2.21e-10448
presumptive mesoderm2.21e-10448
artery1.09e-0942
arterial blood vessel1.09e-0942
arterial system1.09e-0942
blood vessel1.36e-0960
epithelial tube open at both ends1.36e-0960
blood vasculature1.36e-0960
vascular cord1.36e-0960
skeletal muscle tissue1.60e-0961
striated muscle tissue1.60e-0961
myotome1.60e-0961
connective tissue1.65e-09375
multilaminar epithelium1.68e-0982
muscle tissue6.71e-0963
musculature6.71e-0963
musculature of body6.71e-0963
splanchnic layer of lateral plate mesoderm3.76e-0884
systemic artery6.21e-0833
systemic arterial system6.21e-0833
multi-cellular organism1.56e-07659
anatomical group2.57e-07626
anatomical system2.58e-07625
integument7.15e-0745
integumental system7.15e-0745
aorta9.04e-0721
aortic system9.04e-0721


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.