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Coexpression cluster:C4222

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Full id: C4222_Fibroblast_Mast_Smooth_mesenchymal_Myoblast_Preadipocyte_basal



Phase1 CAGE Peaks

  Short description
Hg19::chr2:33824285..33824308,- p2@FAM98A
Hg19::chr2:33824309..33824326,- p3@FAM98A
Hg19::chr2:33824336..33824378,- p1@FAM98A


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


Uber Anatomy
Ontology termp-valuen
dense mesenchyme tissue1.23e-1873
paraxial mesoderm3.32e-1872
presumptive paraxial mesoderm3.32e-1872
somite4.11e-1871
presomitic mesoderm4.11e-1871
presumptive segmental plate4.11e-1871
dermomyotome4.11e-1871
trunk paraxial mesoderm4.11e-1871
multilaminar epithelium2.00e-1583
epithelial vesicle1.39e-1478
skeletal muscle tissue3.46e-1462
striated muscle tissue3.46e-1462
myotome3.46e-1462
muscle tissue2.38e-1364
musculature2.38e-1364
musculature of body2.38e-1364
surface structure8.94e-1399
artery1.22e-1242
arterial blood vessel1.22e-1242
arterial system1.22e-1242
unilaminar epithelium3.73e-12148
vasculature1.47e-1178
vascular system1.47e-1178
systemic artery3.23e-1133
systemic arterial system3.23e-1133
integument3.67e-1146
integumental system3.67e-1146
splanchnic layer of lateral plate mesoderm8.32e-1183
epithelial tube open at both ends2.69e-1059
blood vessel2.69e-1059
blood vasculature2.69e-1059
vascular cord2.69e-1059
mesenchyme4.09e-10160
entire embryonic mesenchyme4.09e-10160
vessel5.71e-1068
trunk mesenchyme1.01e-09122
skin of body1.33e-0941
cell layer2.98e-08309
epithelium6.77e-08306
cardiovascular system8.96e-08109
multi-tissue structure1.00e-07342
circulatory system1.14e-07112
organism subdivision3.25e-07264
aorta9.12e-0721
aortic system9.12e-0721


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)
MA0003.10.178364
MA0004.10.826076
MA0006.11.5435
MA0007.10.804807
MA0009.11.3275
MA0014.11.24048
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
MA0048.11.62115
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
MA0066.12.1667
MA0067.11.65513
MA0068.11.84332
MA0069.11.31207
MA0070.11.30033
MA0071.10.897953
MA0072.11.29561
MA0073.10.0834661
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
MA0111.11.80901
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
MA0145.10.273764
MA0146.10.107247
MA0147.10.565108
MA0148.10.854239
MA0149.10.884158
MA0062.20.449458
MA0035.20.894194
MA0039.21.62945
MA0138.21.04628
MA0002.20.476938
MA0137.20.666381
MA0104.20.491226
MA0047.20.973066
MA0112.20.264678
MA0065.20.277623
MA0150.10.744617
MA0151.10
MA0152.10.902317
MA0153.11.43021
MA0154.10.312019
MA0155.10.256269
MA0156.10.669101
MA0157.11.09377
MA0158.10
MA0159.10.565904
MA0160.12.02335
MA0161.10
MA0162.10.149099
MA0163.10.122425
MA0164.11.01792
MA0080.20.643061
MA0018.20.987913
MA0099.20.902716
MA0079.20.181755
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
CCNT2#90536.336201576962630.003930750035764890.0190507031873984
CEBPB#105137.971147625824820.001974187055288560.0115508191522287
CTCF#1066435.360256373075030.0064925092527670.0280241020767785
E2F1#186934.907389214879320.008460985347239390.0326349613576221
E2F6#187635.017155731697390.00791769806886330.0323165729488047
EBF1#187938.9064668465690.00141523283560980.00917192070234268
ELF1#199734.258097958807540.01295179875054610.0463577541967951
GABPB1#255337.067683836182170.002832212825417420.015447747820857
GATA2#2624312.7449317335540.0004829527704283790.00437763447238062
HDAC2#3066313.41562023662630.0004140761399857210.00392251228879535
IRF1#365937.63716375356390.002244692747297240.0128407441438887
MAX#414936.452555509007120.003721913834265510.0187007100421849
MXI1#460139.96157162875930.001011470541259020.00721416184241965
MYC#460935.22228187160940.007020843755740150.029524860117002
NANOG#79923329.24477848101273.99627955670032e-050.000739226781123318
NRF1#4899312.21027944771090.0005492172401020010.00472174014973764
POU2F2#545239.106124057742520.001324165192682130.0088367085340913
SIN3A#2594235.408884726815140.006318961977991520.0277533146902501
SIX5#147912317.0867153554590.0002004060546325010.00239997797726909
SRF#6722313.79717826216780.0003806615025800190.00375764713307699
THAP1#55145331.36914460285133.23800758564397e-050.000648215975152522
USF1#739136.361499277207960.00388404057290560.0190793148673011
YY1#752834.911170749853860.008441455341808260.0330168959045432
ZNF263#1012738.221841637010680.001799043925565870.0109672162352425



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.