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Coexpression cluster:C581

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Full id: C581_Fibroblast_Keratocytes_Lens_CD14_Mesenchymal_Hepatic_Hair



Phase1 CAGE Peaks

Hg19::chr10:17271266..17271286,+p1@VIM
Hg19::chr10:17271909..17272033,-p1@uc001iot.1
Hg19::chr10:17272625..17272692,+p@chr10:17272625..17272692
+
Hg19::chr10:17275575..17275660,+p3@VIM
Hg19::chr10:17275758..17275914,+p@chr10:17275758..17275914
+
Hg19::chr10:17276681..17276732,+p@chr10:17276681..17276732
+
Hg19::chr10:17276737..17276787,+p@chr10:17276737..17276787
+
Hg19::chr10:17277164..17277180,+p@chr10:17277164..17277180
+
Hg19::chr10:17277196..17277231,+p@chr10:17277196..17277231
+
Hg19::chr10:17277273..17277306,+p@chr10:17277273..17277306
+
Hg19::chr10:17277329..17277340,+p@chr10:17277329..17277340
+
Hg19::chr10:17277832..17277867,+p@chr10:17277832..17277867
+
Hg19::chr10:17278284..17278356,+p4@VIM
Hg19::chr10:17279217..17279304,+p@chr10:17279217..17279304
+
Hg19::chr6:126923668..126923692,-p@chr6:126923668..126923692
-


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:0045103intermediate filament-based process0.0101554221123278
GO:0005200structural constituent of cytoskeleton0.0287736959849288
GO:0045111intermediate filament cytoskeleton0.0399446603084893
GO:0005882intermediate filament0.0399446603084893
GO:0051674localization of cell0.0432169629891283
GO:0006928cell motility0.0432169629891283



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 cell8.41e-31180
somatic cell2.49e-28591
multi fate stem cell2.36e-25430
somatic stem cell1.58e-23436
stem cell3.65e-22444
fibroblast6.42e-1875
mesodermal cell3.17e-15119
CD14-positive, CD16-negative classical monocyte1.11e-1442
connective tissue cell7.34e-14365
animal cell1.62e-13679
eukaryotic cell1.62e-13679
classical monocyte1.04e-1245
mesenchymal cell1.93e-12358
macrophage dendritic cell progenitor2.86e-1265
muscle precursor cell3.42e-1257
myoblast3.42e-1257
multi-potent skeletal muscle stem cell3.42e-1257
motile cell4.24e-12390
granulocyte monocyte progenitor cell6.88e-1271
monopoietic cell7.19e-1263
monocyte7.19e-1263
monoblast7.19e-1263
promonocyte7.19e-1263
contractile cell1.46e-1159
muscle cell1.68e-1154
myeloid lineage restricted progenitor cell1.18e-1070
myeloid leukocyte1.85e-1076
electrically responsive cell2.55e-1060
electrically active cell2.55e-1060
smooth muscle cell6.06e-1042
smooth muscle myoblast6.06e-1042
skin fibroblast4.03e-0923
vascular associated smooth muscle cell8.13e-0932
native cell9.84e-09722
Uber Anatomy
Ontology termp-valuen
musculoskeletal system1.70e-26167
lateral plate mesoderm3.77e-23216
somite1.15e-1683
paraxial mesoderm1.15e-1683
presomitic mesoderm1.15e-1683
presumptive segmental plate1.15e-1683
trunk paraxial mesoderm1.15e-1683
presumptive paraxial mesoderm1.15e-1683
vasculature2.35e-1679
vascular system2.35e-1679
cardiovascular system3.17e-15110
dermomyotome5.82e-1570
vessel8.01e-1569
circulatory system2.75e-14113
connective tissue3.40e-14375
blood vessel1.00e-1360
epithelial tube open at both ends1.00e-1360
blood vasculature1.00e-1360
vascular cord1.00e-1360
skeletal element1.09e-13101
skeletal system1.09e-13101
splanchnic layer of lateral plate mesoderm1.67e-1384
artery3.19e-1342
arterial blood vessel3.19e-1342
arterial system3.19e-1342
mesoderm4.73e-13448
mesoderm-derived structure4.73e-13448
presumptive mesoderm4.73e-13448
bone marrow8.14e-1380
multilaminar epithelium6.55e-1282
bone element6.76e-1286
skeletal muscle tissue1.38e-1161
striated muscle tissue1.38e-1161
myotome1.38e-1161
muscle tissue7.50e-1163
musculature7.50e-1163
musculature of body7.50e-1163
systemic artery1.78e-1033
systemic arterial system1.78e-1033
hemolymphoid system2.11e-09112
hematopoietic system1.69e-08102
blood island1.69e-08102
aorta7.05e-0821
aortic system7.05e-0821
integument2.41e-0745
integumental system2.41e-0745


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
CTCF#10664103.573504248716686.07197623972401e-050.000996309703850017
MAFK#797559.033577712609970.0001503357337649870.00193694962974111
POLR2A#5430131.861126086350330.001642058826741280.010274082303261
RAD21#588553.451677965152110.01100947940992650.0405008460758478
ZBTB33#10009510.55490834332717.22167785884653e-050.00113570970320746



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.