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Coexpression cluster:C3093

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Full id: C3093_mesenchymal_gastric_oral_glioma_liver_osteosarcoma_maxillary



Phase1 CAGE Peaks

  Short description
Hg19::chr11:118927755..118927766,- p7@HYOU1
Hg19::chr11:118927792..118927803,- p6@HYOU1
Hg19::chr11:118927817..118927862,- p1@HYOU1


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
embryonic cell4.04e-11250
epithelial cell5.62e-10253
animal cell3.61e-09679
eukaryotic cell3.61e-09679
endodermal cell3.04e-0758
Uber Anatomy
Ontology termp-valuen
epithelial tube4.33e-11117
trunk2.76e-09199
subdivision of trunk1.04e-08112
immaterial anatomical entity3.85e-08117
artery2.51e-0742
arterial blood vessel2.51e-0742
arterial system2.51e-0742
organism subdivision8.86e-07264
Disease
Ontology termp-valuen
cancer5.24e-12235
disease of cellular proliferation2.06e-11239
organ system cancer4.48e-09137
cell type cancer2.34e-08143


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)
MA0003.11.54338
MA0004.10.826076
MA0006.10.639288
MA0007.10.804807
MA0009.11.3275
MA0014.14.7105
MA0017.10.686276
MA0019.10.990656
MA0024.11.21731
MA0025.11.46617
MA0027.12.95767
MA0028.11.58389
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
MA0060.12.13518
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
MA0073.11.79391
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
MA0114.10.549955
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
MA0142.11.12317
MA0143.11.00455
MA0144.10.531867
MA0145.11.37817
MA0146.13.73313
MA0147.11.38767
MA0148.10.854239
MA0149.10.884158
MA0062.20.449458
MA0035.20.894194
MA0039.22.74132
MA0138.21.04628
MA0002.20.476938
MA0137.20.666381
MA0104.22.13189
MA0047.20.973066
MA0112.20.264678
MA0065.20.277623
MA0150.10.744617
MA0151.10
MA0152.10.902317
MA0153.11.43021
MA0154.10.312019
MA0155.10.711948
MA0156.10.669101
MA0157.11.09377
MA0158.10
MA0159.10.565904
MA0160.10.871361
MA0161.10
MA0162.15.21222
MA0163.10.776149
MA0164.11.01792
MA0080.20.643061
MA0018.20.987913
MA0099.20.902716
MA0079.26.30148
MA0102.21.88331
MA0258.10.519674
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
CCNT2#90536.336201576962630.003930750035764890.0189155233371077
CEBPB#105137.971147625824820.001974187055288560.0114935125629791
CHD2#1106310.34402283411690.0009033701102746880.00658434440274814
CTCF#1066435.360256373075030.0064925092527670.0278274376759442
E2F1#186934.907389214879320.008460985347239390.0323612703684295
E2F6#187635.017155731697390.00791769806886330.0320435739213367
EGR1#195834.988179094810140.008056488137383440.0319079091611752
ELF1#199734.258097958807540.01295179875054610.0460108476379565
ELK4#2005210.8237877723120.01091284719516480.0401750801302765
ETS1#211339.728760922202340.001085840092584840.00759927986527292
FOS#235338.99795530889440.001372499272417130.00894827714039407
HMGN3#932438.178547723350590.001827766942164210.0108306469034149
IRF1#365937.63716375356390.002244692747297240.0127617564417516
MAX#414936.452555509007120.003721913834265510.0185755977700877
MYC#460935.22228187160940.007020843755740150.0293217859401666
NFYA#4800318.42558069983050.0001598135507814160.00199007600215337
NFYB#4801316.75979325353650.0002123649923296180.00244938569121071
NRF1#4899312.21027944771090.0005492172401020010.00469507238593868
PAX5#507936.669565531177830.003370290999677260.0172299095264229
POU2F2#545239.106124057742520.001324165192682130.00879512137869047
RFX5#5993312.04791082719510.0005717246050312580.00482976187210706
SIN3A#2594235.408884726815140.006318961977991520.0275436590158371
SP1#666735.69838137814090.005403962701712170.0245437904154867
SP2#6668326.15353049384465.58768218891694e-050.000937464964061519
TAF7#6879311.43306940492390.0006690181981945830.00540550762813276
TFAP2A#7020316.5186343730450.0002218033880766340.0024735636996621
TFAP2C#7022310.80922860986020.0007916746575753130.00613001998535796
USF1#739136.361499277207960.00388404057290560.0189527315513567
YY1#752834.911170749853860.008441455341808260.0327945971224608
ZBTB7A#5134137.35190930787590.002516255860282270.0139599068149811



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.