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Coexpression cluster:C4115

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Full id: C4115_mesothelioma_chorionic_Smooth_Sertoli_Prostate_Mesenchymal_tubular



Phase1 CAGE Peaks

  Short description
Hg19::chr2:106013294..106013307,- p8@FHL2
Hg19::chr2:106013351..106013364,- p9@FHL2
Hg19::chr2:106013400..106013438,- p5@FHL2


Enriched pathways on this co-expression clusterSummary:
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.
Analyst: Emmanuel Dimont

link to source dataset
data


No results for this coexpression

Enriched Gene Ontology terms on this co-expression clusterSummary: 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.
Analyst: Erik Arner

link to source dataset
data


No GOStat results

Enriched sample ontology terms on this co-expression clusterSummary: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. Analyst: Hideya Kawaji

links to source dataset

cell_data
uberon_data
disease_data


Uber Anatomy
Ontology termp-valuen
artery1.18e-2242
arterial blood vessel1.18e-2242
arterial system1.18e-2242
epithelial tube open at both ends6.54e-1959
blood vessel6.54e-1959
blood vasculature6.54e-1959
vascular cord6.54e-1959
splanchnic layer of lateral plate mesoderm9.25e-1883
systemic artery1.69e-1733
systemic arterial system1.69e-1733
vessel2.19e-1668
vasculature2.67e-1678
vascular system2.67e-1678
skeletal muscle tissue7.79e-1562
striated muscle tissue7.79e-1562
myotome7.79e-1562
muscle tissue1.57e-1464
musculature1.57e-1464
musculature of body1.57e-1464
unilaminar epithelium2.03e-12148
somite2.24e-1271
presomitic mesoderm2.24e-1271
presumptive segmental plate2.24e-1271
dermomyotome2.24e-1271
trunk paraxial mesoderm2.24e-1271
epithelial tube2.74e-12117
cardiovascular system3.04e-12109
dense mesenchyme tissue3.21e-1273
paraxial mesoderm5.60e-1272
presumptive paraxial mesoderm5.60e-1272
circulatory system5.82e-12112
multilaminar epithelium1.81e-1183
epithelial vesicle6.22e-1178
aorta1.60e-1021
aortic system1.60e-1021
blood vessel smooth muscle5.56e-0810
arterial system smooth muscle5.56e-0810
artery smooth muscle tissue5.56e-0810
aorta smooth muscle tissue5.56e-0810
trunk mesenchyme6.13e-08122
mesoderm3.41e-07315
mesoderm-derived structure3.41e-07315
presumptive mesoderm3.41e-07315
trunk6.17e-07199
smooth muscle tissue7.09e-0715
Disease
Ontology termp-valuen
ovarian cancer3.70e-0714


Overrepresented TFBS (DNA) motifs on this co-expression clusterSummary: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. Analyst: Michiel de Hoon

link to source data
Novel motifs
data

Jaspar motifs
data


Novel motifs



JASPAR motifs

Motifs-log10(p-value)
MA0003.10.401049
MA0004.10.826076
MA0006.10.639288
MA0007.10.804807
MA0009.11.3275
MA0014.10.118426
MA0017.11.64148
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
MA0041.13.27048
MA0042.11.89908
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
MA0088.10.257905
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
MA0114.11.35563
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
MA0142.11.12317
MA0143.11.00455
MA0144.10.531867
MA0145.10.273764
MA0146.10.107247
MA0147.10.565108
MA0148.10.854239
MA0149.10.884158
MA0062.20.449458
MA0035.20.894194
MA0039.20.0526989
MA0138.21.04628
MA0002.20.476938
MA0137.20.666381
MA0104.20.491226
MA0047.20.973066
MA0112.20.264678
MA0065.20.277623
MA0150.11.76247
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
MA0099.23.44359
MA0079.20.00160703
MA0102.21.88331
MA0258.10.519674
MA0259.10.575594
MA0442.10



ENCODE TF ChIP-seq peak enrichment analysisSummary: 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.
Analyst: Erik Arner

link to source dataset

data


(#promoters = Number of promoters in this coexpression cluster that have ChIP signal of the TF)

TF#promotersEnrichmentp-valueq-value
E2F1#186934.907389214879320.008460985347239390.0326048575263942
EP300#203336.77394172622320.003216880500103790.0167732292835916
FOS#235338.99795530889440.001372499272417130.00899093341980634
FOSL1#8061339.7135797163731.59554825631833e-050.000371543956168629
FOSL2#2355316.93020060456170.0002060162053171620.00243422632278754
GATA1#2623313.56030814380040.0004009615963782630.00388424340637691
GATA2#2624312.7449317335540.0004829527704283790.00437421770798452
HNF4A#3172323.13229036295378.07584663437677e-050.00122985323220717
JUN#3725312.51282919233630.0005103313992726250.004448956678517
JUND#372736.994663941871030.002921845042734990.0157045223826977
MAX#414936.452555509007120.003721913834265510.0186908188169859
NR3C1#2908314.9730233311730.0002978331194675480.00309290973094077
SMARCB1#6598318.25271578115740.000164397760679890.00203406441507488
STAT1#6772320.70658749719920.0001125992441046670.00155039584114005
STAT3#6774310.51946499715420.0008589184530415310.00643551074805972
TCF7L2#6934310.77017656313730.0008003181298398380.00614817397295645
TFAP2A#7020316.5186343730450.0002218033880766340.00248657407120391
TFAP2C#7022310.80922860986020.0007916746575753130.00616843550899046



Relative expression of the co-expression clusterSummary:Co-expression clusters are compared against FANTOM5 samples to obtain relative expression.
Analyst:NA

link to data source
data


This analysis result is provided for C0 - C305 clusters.