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Coexpression cluster:C3346

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Full id: C3346_Endothelial_Renal_somatostatinoma_Lymphatic_Small_Fibroblast_Natural



Phase1 CAGE Peaks

Hg19::chr12:96028776..96028781,-p@chr12:96028776..96028781
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Hg19::chr5:106837869..106837878,-p@chr5:106837869..106837878
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Hg19::chr5:106837881..106837888,-p@chr5:106837881..106837888
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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>disease_data<br>


Cell Type
Ontology termp-valuen
endothelial cell of vascular tree1.60e-5724
endothelial cell2.90e-5336
meso-epithelial cell2.58e-4245
blood vessel endothelial cell1.27e-4018
embryonic blood vessel endothelial progenitor cell1.27e-4018
capillary endothelial cell1.85e-363
lining cell1.74e-3258
barrier cell1.74e-3258
lymphangioblast1.84e-186
endothelial cell of lymphatic vessel1.84e-186
vascular lymphangioblast1.84e-186
vein endothelial cell6.69e-186
endothelial cell of umbilical vein2.20e-163
mesodermal cell1.04e-14121
peptide hormone secreting cell2.32e-131
enteroendocrine cell2.32e-131
type D enteroendocrine cell2.32e-131
somatostatin secreting cell2.32e-131
pancreatic D cell2.32e-131
progenitor cell of endocrine pancreas2.32e-131
epithelial cell of nephron1.18e-1215
kidney cell3.41e-1117
kidney epithelial cell3.41e-1117
squamous epithelial cell4.72e-1163
fenestrated cell1.95e-105
glomerular endothelial cell1.95e-105
epithelial cell6.93e-10253
kidney cortical cell2.26e-0912
renal cortical epithelial cell2.26e-0912
glomerular cell1.06e-077
kidney corpuscule cell1.06e-077
Uber Anatomy
Ontology termp-valuen
blood vessel endothelium1.27e-4018
endothelium1.27e-4018
cardiovascular system endothelium1.27e-4018
microcirculatory vessel1.85e-363
endothelium of capillary1.85e-363
capillary1.85e-363
simple squamous epithelium4.07e-3322
squamous epithelium4.64e-2925
vessel1.82e-1968
vasculature8.62e-1778
vascular system8.62e-1778
lymphatic vessel5.28e-148
lymph vasculature5.28e-148
lymphatic part of lymphoid system5.28e-148
epithelial tube9.13e-13117
nephron epithelium1.18e-1215
renal tubule1.18e-1215
nephron tubule1.18e-1215
nephron1.18e-1215
uriniferous tubule1.18e-1215
nephrogenic mesenchyme1.18e-1215
vein3.83e-129
venous blood vessel3.83e-129
venous system3.83e-129
excretory tube7.05e-1216
kidney epithelium7.05e-1216
epithelial tube open at both ends7.36e-1259
blood vessel7.36e-1259
blood vasculature7.36e-1259
vascular cord7.36e-1259
cardiovascular system1.32e-11109
lymphoid system2.55e-1110
circulatory system2.96e-11112
umbilical vein3.27e-105
cortex of kidney2.26e-0912
renal parenchyma2.26e-0912
anatomical conduit5.39e-09240
splanchnic layer of lateral plate mesoderm3.53e-0883
primitive nephron1.06e-077
renal glomerulus1.06e-077
renal corpuscle1.06e-077
glomerular capsule1.06e-077
metanephric mesenchyme1.06e-077
glomerular tuft1.06e-077
S-shaped body1.06e-077
renal vesicle1.06e-077
comma-shaped body1.06e-077
cortex1.34e-0715
parenchyma1.34e-0715
kidney2.17e-0726
kidney mesenchyme2.17e-0726
upper urinary tract2.17e-0726
kidney rudiment2.17e-0726
kidney field2.17e-0726
tube4.42e-07192
mesonephric epithelium7.66e-078
mesonephric tubule7.66e-078
nephric duct7.66e-078
renal duct7.66e-078
mesonephric duct7.66e-078
pronephric duct7.66e-078
Disease
Ontology termp-valuen
somatostatinoma2.32e-131


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)
MA0003.10.0471418
MA0004.10.826076
MA0006.10.639288
MA0007.10.804807
MA0009.11.3275
MA0014.10.118426
MA0017.10.686276
MA0019.10.990656
MA0024.11.21731
MA0025.11.46617
MA0027.12.95767
MA0028.10.658629
MA0029.11.23771
MA0030.11.22561
MA0031.11.15713
MA0038.10.94098
MA0040.11.24388
MA0041.10.847069
MA0042.10.810843
MA0043.11.32783
MA0046.11.31611
MA0048.10.341392
MA0050.10.81185
MA0051.10.936307
MA0052.11.24796
MA0055.10.190716
MA0056.10
MA0057.10.333427
MA0058.10.716037
MA0059.10.714521
MA0060.10.492218
MA0061.10.456531
MA0063.10
MA0066.10.941452
MA0067.11.65513
MA0068.10.405474
MA0069.11.31207
MA0070.11.30033
MA0071.10.897953
MA0072.11.29561
MA0073.10.0185922
MA0074.10.935474
MA0076.10.734647
MA0077.11.28751
MA0078.11.04495
MA0081.10.714712
MA0083.11.33535
MA0084.11.84562
MA0087.11.29304
MA0088.10.715722
MA0089.10
MA0090.10.751469
MA0091.10.829044
MA0092.10.785956
MA0093.10.642957
MA0095.10
MA0098.10
MA0100.10.956299
MA0101.10.646932
MA0103.10.628063
MA0105.10.31555
MA0106.10.986396
MA0107.10.556367
MA0108.21.15387
MA0109.10
MA0111.10.767139
MA0113.11.00436
MA0114.10.549955
MA0115.11.57693
MA0116.10.560723
MA0117.11.36676
MA0119.10.695578
MA0122.11.39371
MA0124.11.53432
MA0125.11.44766
MA0130.10
MA0131.11.06461
MA0132.10
MA0133.10
MA0135.11.35921
MA0136.10.948776
MA0139.10.440097
MA0140.10.894983
MA0141.10.712476
MA0142.12.53618
MA0143.11.00455
MA0144.10.531867
MA0145.10.273764
MA0146.10.107247
MA0147.10.565108
MA0148.11.98824
MA0149.10.884158
MA0062.20.449458
MA0035.20.894194
MA0039.20.0526989
MA0138.21.04628
MA0002.20.476938
MA0137.20.666381
MA0104.20.491226
MA0047.23.66129
MA0112.20.264678
MA0065.20.277623
MA0150.10.744617
MA0151.10
MA0152.10.902317
MA0153.11.43021
MA0154.10.312019
MA0155.10.256269
MA0156.10.669101
MA0157.11.09377
MA0158.10
MA0159.10.565904
MA0160.10.871361
MA0161.10
MA0162.10.149099
MA0163.10.122425
MA0164.11.01792
MA0080.20.643061
MA0018.20.987913
MA0099.22.08754
MA0079.20.00160703
MA0102.21.88331
MA0258.10.519674
MA0259.10.575594
MA0442.10



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
EP300#203336.77394172622320.003216880500103790.0167098270441828
FOS#235338.99795530889440.001372499272417130.00895722374004703
GATA2#2624312.7449317335540.0004829527704283790.00436324432446103
JUN#3725312.51282919233630.0005103313992726250.00443488941659458



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.