Personal tools

Coexpression cluster:C422

From FANTOM5_SSTAR

Jump to: navigation, search


Full id: C422_mesenchymal_Smooth_Fibroblast_papillary_Endothelial_fibrous_osteosarcoma



Phase1 CAGE Peaks

  Short description
Hg19::chr11:102661061..102661115,- p@chr11:102661061..102661115
-
Hg19::chr11:102661460..102661475,- p@chr11:102661460..102661475
-
Hg19::chr11:102661517..102661541,- p@chr11:102661517..102661541
-
Hg19::chr11:102662162..102662217,- p@chr11:102662162..102662217
-
Hg19::chr11:102662218..102662229,- p@chr11:102662218..102662229
-
Hg19::chr11:102663376..102663430,- p@chr11:102663376..102663430
-
Hg19::chr11:102663449..102663467,- p@chr11:102663449..102663467
-
Hg19::chr11:102665915..102665927,+ p@chr11:102665915..102665927
+
Hg19::chr11:102665942..102665954,- p@chr11:102665942..102665954
-
Hg19::chr11:102665984..102666003,- p@chr11:102665984..102666003
-
Hg19::chr11:102666252..102666270,- p2@MMP1
Hg19::chr11:102667434..102667447,- p@chr11:102667434..102667447
-
Hg19::chr11:102667477..102667490,- p@chr11:102667477..102667490
-
Hg19::chr11:102667504..102667527,- p@chr11:102667504..102667527
-
Hg19::chr11:102668016..102668028,- p5@MMP1
Hg19::chr11:102668074..102668126,- p3@MMP1
Hg19::chr11:102668148..102668159,+ p@chr11:102668148..102668159
+
Hg19::chr11:102668160..102668174,+ p@chr11:102668160..102668174
+
Hg19::chr11:102668166..102668181,- p10@MMP1
Hg19::chr11:102668178..102668206,+ p@chr11:102668178..102668206
+
Hg19::chr11:102668185..102668198,- p12@MMP1
Hg19::chr11:102668200..102668228,- p4@MMP1
Hg19::chr11:102668234..102668245,- p11@MMP1
Hg19::chr11:102668879..102668898,- p1@MMP1


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


Cell Type
Ontology termp-valuen
vascular associated smooth muscle cell4.58e-3032
smooth muscle cell9.24e-2643
smooth muscle myoblast9.24e-2643
muscle cell4.68e-2155
mesodermal cell3.81e-20121
muscle precursor cell1.72e-1958
myoblast1.72e-1958
multi-potent skeletal muscle stem cell1.72e-1958
contractile cell5.26e-1959
electrically responsive cell4.39e-1861
electrically active cell4.39e-1861
aortic smooth muscle cell1.15e-1410
fibroblast1.46e-1376
endothelial cell of vascular tree3.94e-1324
endothelial cell of artery8.66e-129
somatic cell3.80e-10588
multi fate stem cell3.98e-10427
cardiocyte4.46e-1016
embryonic cell6.69e-10250
blood vessel endothelial cell9.08e-1018
embryonic blood vessel endothelial progenitor cell9.08e-1018
endothelial cell9.09e-1036
somatic stem cell1.09e-09433
non-terminally differentiated cell1.61e-09106
stem cell3.95e-09441
animal cell1.43e-08679
eukaryotic cell1.43e-08679
smooth muscle cell of the umbilical artery2.06e-084
fibroblast of tunica adventitia of artery2.97e-084
fibroblast of the aortic adventitia2.97e-084
aortic endothelial cell1.10e-076
smooth muscle cell of the subclavian artery3.25e-075
smooth muscle cell of the coronary artery3.82e-073
fibroblast of dermis5.18e-076
meso-epithelial cell5.79e-0745
Uber Anatomy
Ontology termp-valuen
artery5.13e-5442
arterial blood vessel5.13e-5442
arterial system5.13e-5442
vessel1.92e-4268
epithelial tube open at both ends2.23e-4159
blood vessel2.23e-4159
blood vasculature2.23e-4159
vascular cord2.23e-4159
systemic artery5.71e-4033
systemic arterial system5.71e-4033
splanchnic layer of lateral plate mesoderm8.49e-3883
vasculature3.97e-3578
vascular system3.97e-3578
cardiovascular system6.54e-31109
circulatory system1.19e-29112
epithelial tube2.51e-27117
aorta1.29e-2521
aortic system1.29e-2521
somite1.99e-2271
presomitic mesoderm1.99e-2271
presumptive segmental plate1.99e-2271
dermomyotome1.99e-2271
trunk paraxial mesoderm1.99e-2271
epithelial vesicle4.51e-2278
paraxial mesoderm5.80e-2272
presumptive paraxial mesoderm5.80e-2272
dense mesenchyme tissue1.64e-2173
unilaminar epithelium1.69e-20148
multilaminar epithelium5.06e-2083
skeletal muscle tissue1.20e-1762
striated muscle tissue1.20e-1762
myotome1.20e-1762
muscle tissue8.14e-1764
musculature8.14e-1764
musculature of body8.14e-1764
blood vessel smooth muscle1.15e-1410
arterial system smooth muscle1.15e-1410
artery smooth muscle tissue1.15e-1410
aorta smooth muscle tissue1.15e-1410
trunk mesenchyme3.77e-14122
mesoderm5.37e-14315
mesoderm-derived structure5.37e-14315
presumptive mesoderm5.37e-14315
anatomical conduit1.06e-12240
endothelial tube8.66e-129
arterial system endothelium8.66e-129
endothelium of artery8.66e-129
smooth muscle tissue8.08e-1115
tube8.65e-11192
epithelium1.68e-10306
cell layer3.14e-10309
lateral plate mesoderm4.31e-10203
heart blood vessel7.40e-105
coronary vessel7.40e-105
blood vessel endothelium9.08e-1018
endothelium9.08e-1018
cardiovascular system endothelium9.08e-1018
heart1.38e-0824
primitive heart tube1.38e-0824
primary heart field1.38e-0824
anterior lateral plate mesoderm1.38e-0824
heart tube1.38e-0824
heart primordium1.38e-0824
cardiac mesoderm1.38e-0824
cardiogenic plate1.38e-0824


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)
MA0003.15.44378e-09
MA0004.10.13931
MA0006.10.0576274
MA0007.10.801773
MA0009.10.495012
MA0014.14.57228e-06
MA0017.10.0747264
MA0019.10.238234
MA0024.10.404839
MA0025.12.53478
MA0027.12.05626
MA0028.10.0643724
MA0029.10.421158
MA0030.10.41146
MA0031.10.357843
MA0038.10.206085
MA0040.11.09053
MA0041.10.898054
MA0042.10.131332
MA0043.10.495289
MA0046.10.485466
MA0048.10.0201022
MA0050.10.131853
MA0051.10.203156
MA0052.10.429421
MA0055.10.350761
MA0056.10
MA0057.10.0180778
MA0058.10.086794
MA0059.10.0861568
MA0060.10.0198514
MA0061.10.0141489
MA0063.10
MA0066.10.206381
MA0067.10.78548
MA0068.10.0418736
MA0069.10.482095
MA0070.10.472333
MA0071.10.179775
MA0072.10.468422
MA0073.14.13103e-12
MA0074.10.202636
MA0076.10.314823
MA0077.10.461731
MA0078.10.275364
MA0081.10.0862369
MA0083.14.32567
MA0084.10.964138
MA0087.11.17726
MA0088.10.207403
MA0089.10
MA0090.10.335123
MA0091.10.140889
MA0092.10.759879
MA0093.10.0588752
MA0095.10
MA0098.10
MA0100.10.61748
MA0101.10.0602439
MA0103.10.0539026
MA0105.10.111879
MA0106.10.235406
MA0107.10.0334156
MA0108.20.355343
MA0109.10
MA0111.13.03378
MA0113.10.69147
MA0114.10.0318605
MA0115.10.71383
MA0116.10.0344979
MA0117.10.528241
MA0119.10.0783963
MA0122.10.551352
MA0124.10.675302
MA0125.10.598285
MA0130.10
MA0131.10.289284
MA0132.10
MA0133.10
MA0135.10.521813
MA0136.10.211008
MA0139.10.0119363
MA0140.10.178014
MA0141.11.01397
MA0142.10.33212
MA0143.10.247545
MA0144.10.516571
MA0145.10.00708665
MA0146.12.28252e-06
MA0147.10.0356084
MA0148.10.154621
MA0149.10.17166
MA0062.20.0628366
MA0035.20.177548
MA0039.21.26257e-08
MA0138.20.276299
MA0002.20.20101
MA0137.20.511766
MA0104.20.0196756
MA0047.20.226642
MA0112.20.022609
MA0065.20.0277639
MA0150.10.326793
MA0151.10
MA0152.12.31379
MA0153.10.583009
MA0154.10.00207168
MA0155.10.000677017
MA0156.10.240796
MA0157.10.310364
MA0158.10
MA0159.10.601663
MA0160.10.164277
MA0161.10
MA0162.12.20789e-05
MA0163.15.75788e-06
MA0164.10.712784
MA0080.20.0589108
MA0018.20.236412
MA0099.20.182613
MA0079.20
MA0102.21.00004
MA0258.12.02265
MA0259.10.0383498
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


No analysis results for this cluster

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.