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Coexpression cluster:C3864

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Full id: C3864_small_Intestinal_serous_choriocarcinoma_Hepatocyte_rectal_Prostate



Phase1 CAGE Peaks

  Short description
Hg19::chr1:151483855..151483871,+ p2@CGN
Hg19::chr1:151483881..151483912,+ p1@CGN
Hg19::chr1:151483924..151483940,+ p3@CGN


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


Cell Type
Ontology termp-valuen
epithelial cell1.53e-15253
endodermal cell8.40e-1358
endo-epithelial cell3.02e-1042
Uber Anatomy
Ontology termp-valuen
organ system subdivision7.30e-21223
endoderm-derived structure6.55e-20160
endoderm6.55e-20160
presumptive endoderm6.55e-20160
subdivision of digestive tract3.44e-18118
digestive system5.53e-18145
digestive tract5.53e-18145
primitive gut5.53e-18145
adult organism4.21e-16114
endo-epithelium2.26e-1582
trunk region element2.43e-14101
anatomical cluster2.13e-12373
immaterial anatomical entity2.77e-12117
foregut3.52e-1287
organ1.70e-11503
organ part1.78e-11218
multi-tissue structure6.61e-11342
subdivision of trunk1.08e-09112
anatomical space4.49e-0995
neural tube1.28e-0856
neural rod1.28e-0856
future spinal cord1.28e-0856
neural keel1.28e-0856
gastrointestinal system1.64e-0825
abdomen element1.65e-0854
abdominal segment element1.65e-0854
anatomical conduit4.67e-08240
regional part of nervous system5.78e-0853
regional part of brain5.78e-0853
gut epithelium7.69e-0854
embryo1.14e-07592
lung2.52e-0722
respiratory tube2.52e-0722
respiration organ2.52e-0722
pair of lungs2.52e-0722
lung primordium2.52e-0722
lung bud2.52e-0722
ectoderm-derived structure2.78e-07171
ectoderm2.78e-07171
presumptive ectoderm2.78e-07171
urinary system structure3.79e-0747
central nervous system5.43e-0781
nervous system7.39e-0789
intestine7.67e-0717
renal system8.44e-0748
ecto-epithelium8.45e-07104
epithelial bud9.42e-0737
Disease
Ontology termp-valuen
carcinoma1.84e-22106
cell type cancer5.58e-19143
adenocarcinoma1.27e-0925
cancer2.56e-09235
disease of cellular proliferation5.12e-09239
squamous cell carcinoma3.03e-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)
MA0003.10.708947
MA0004.11.93041
MA0006.11.5435
MA0007.11.88666
MA0009.11.3275
MA0014.14.7105
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
MA0048.12.45333
MA0050.10.81185
MA0051.10.936307
MA0052.11.24796
MA0055.10.190716
MA0056.10
MA0057.10.886807
MA0058.12.8588
MA0059.11.70014
MA0060.11.23283
MA0061.10.456531
MA0063.10
MA0066.16.69975
MA0067.11.65513
MA0068.10.405474
MA0069.11.31207
MA0070.11.30033
MA0071.10.897953
MA0072.11.29561
MA0073.10.0834661
MA0074.10.935474
MA0076.11.74184
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
MA0093.13.82193
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
MA0139.11.96087
MA0140.10.894983
MA0141.10.712476
MA0142.11.12317
MA0143.11.00455
MA0144.10.531867
MA0145.10.273764
MA0146.10.707589
MA0147.10.565108
MA0148.10.854239
MA0149.10.884158
MA0062.20.449458
MA0035.20.894194
MA0039.25.50873
MA0138.21.04628
MA0002.20.476938
MA0137.20.666381
MA0104.21.2307
MA0047.20.973066
MA0112.23.77966
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
MA0162.10.8915
MA0163.10.776149
MA0164.11.01792
MA0080.20.643061
MA0018.20.987913
MA0099.20.902716
MA0079.24.10519
MA0102.21.88331
MA0258.14.42822
MA0259.11.40979
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#186934.907389214879320.008460985347239390.0325436175995409
E2F6#187635.017155731697390.00791769806886330.0322296631957756
EGR1#195834.988179094810140.008056488137383440.0320708783572263
MAX#414936.452555509007120.003721913834265510.0186558340822065
MYC#460935.22228187160940.007020843755740150.0294560680113183
PAX5#507936.669565531177830.003370290999677260.0172950973720172
USF1#739136.361499277207960.00388404057290560.0190309788127463
USF2#7392312.99219738506960.0004558979393427810.00421657145651973
YY1#752834.911170749853860.008441455341808260.0329477970865951
ZBTB7A#5134137.35190930787590.002516255860282270.0140232254958388



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.