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Coexpression cluster:C3859

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Full id: C3859_CD14_Fibroblast_Preadipocyte_Smooth_leiomyoma_tenocyte_Myoblast



Phase1 CAGE Peaks

Hg19::chr1:145096387..145096477,+p1@SEC22B
Hg19::chr1:145116327..145116343,+p@chr1:145116327..145116343
+
Hg19::chr4:122618095..122618161,-p1@ANXA5


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


GO IDGO nameFDR corrected p-value
GO:0033116ER-Golgi intermediate compartment membrane0.0205762027448468
GO:0050819negative regulation of coagulation0.0205762027448468
GO:0050818regulation of coagulation0.0205762027448468
GO:0055102lipase inhibitor activity0.0205762027448468
GO:0004859phospholipase inhibitor activity0.0205762027448468
GO:0006888ER to Golgi vesicle-mediated transport0.0332505298680399
GO:0005793ER-Golgi intermediate compartment0.0332505298680399
GO:0005544calcium-dependent phospholipid binding0.0365310003594502
GO:0048770pigment granule0.0405595081249357
GO:0042470melanosome0.0405595081249357
GO:0048193Golgi vesicle transport0.0405595081249357
GO:0007596blood coagulation0.0405595081249357
GO:0050817coagulation0.0405595081249357
GO:0007599hemostasis0.0405595081249357
GO:0050878regulation of body fluid levels0.0442604929895272
GO:0042060wound healing0.0442604929895272



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
multi fate stem cell1.22e-29430
non-terminally differentiated cell1.49e-29180
somatic stem cell2.01e-28436
somatic cell7.48e-26591
stem cell3.85e-25444
animal cell5.44e-22679
eukaryotic cell5.44e-22679
muscle precursor cell7.86e-1957
myoblast7.86e-1957
multi-potent skeletal muscle stem cell7.86e-1957
muscle cell2.36e-1754
mesodermal cell1.53e-16119
fibroblast2.72e-1675
contractile cell1.55e-1559
smooth muscle cell1.82e-1542
smooth muscle myoblast1.82e-1542
native cell8.97e-15722
connective tissue cell2.12e-14365
electrically responsive cell5.31e-1460
electrically active cell5.31e-1460
monopoietic cell1.07e-1363
monocyte1.07e-1363
monoblast1.07e-1363
promonocyte1.07e-1363
vascular associated smooth muscle cell2.66e-1332
mesenchymal cell3.09e-13358
macrophage dendritic cell progenitor3.91e-1365
CD14-positive, CD16-negative classical monocyte1.87e-1242
classical monocyte6.08e-1245
granulocyte monocyte progenitor cell4.59e-1171
motile cell5.46e-11390
myeloid lineage restricted progenitor cell5.98e-1170
myeloid leukocyte1.07e-1076
Uber Anatomy
Ontology termp-valuen
musculoskeletal system9.19e-30167
somite3.69e-1983
paraxial mesoderm3.69e-1983
presomitic mesoderm3.69e-1983
presumptive segmental plate3.69e-1983
trunk paraxial mesoderm3.69e-1983
presumptive paraxial mesoderm3.69e-1983
mesoderm1.90e-18448
mesoderm-derived structure1.90e-18448
presumptive mesoderm1.90e-18448
dermomyotome1.72e-1770
skeletal muscle tissue5.24e-1661
striated muscle tissue5.24e-1661
myotome5.24e-1661
lateral plate mesoderm3.65e-15216
muscle tissue4.24e-1563
musculature4.24e-1563
musculature of body4.24e-1563
multilaminar epithelium1.27e-1482
connective tissue6.33e-14375
skeletal element4.71e-13101
skeletal system4.71e-13101
bone marrow3.51e-1280
trunk mesenchyme4.67e-12143
bone element2.22e-1186
artery3.11e-1142
arterial blood vessel3.11e-1142
arterial system3.11e-1142
vasculature8.01e-1179
vascular system8.01e-1179
systemic artery4.21e-1033
systemic arterial system4.21e-1033
splanchnic layer of lateral plate mesoderm9.32e-1084
cardiovascular system1.75e-09110
immune system2.93e-09115
unilaminar epithelium3.12e-09138
vessel4.05e-0969
multi-cellular organism9.14e-09659
circulatory system1.06e-08113
blood vessel1.15e-0860
epithelial tube open at both ends1.15e-0860
blood vasculature1.15e-0860
vascular cord1.15e-0860
anatomical system7.60e-08625
anatomical group8.16e-08626
hemolymphoid system5.19e-07112
hematopoietic system8.66e-07102
blood island8.66e-07102


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
SMC3#9126210.02995522995520.0126656379767470.0457489992617238
ZZZ3#26009179.80440414507770.0124784379082580.0451618524690909



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.