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Coexpression cluster:C2828

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Full id: C2828_Wilms_normal_Retinal_rhabdomyosarcoma_Hair_liposarcoma_glioblastoma



Phase1 CAGE Peaks

  Short description
Hg19::chr5:75912926..75912939,- p@chr5:75912926..75912939
-
Hg19::chr5:75919155..75919191,- p3@F2RL2
Hg19::chr5:75919192..75919215,- p1@F2RL2
Hg19::chr5:75919217..75919250,- p2@F2RL2


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
organism subdivision1.42e-18264
multi-tissue structure8.94e-15342
dense mesenchyme tissue1.56e-1473
somite3.64e-1471
presomitic mesoderm3.64e-1471
presumptive segmental plate3.64e-1471
dermomyotome3.64e-1471
trunk paraxial mesoderm3.64e-1471
epithelial vesicle5.38e-1478
mesenchyme5.59e-14160
entire embryonic mesenchyme5.59e-14160
paraxial mesoderm5.68e-1472
presumptive paraxial mesoderm5.68e-1472
cell layer2.73e-12309
muscle tissue4.23e-1264
musculature4.23e-1264
musculature of body4.23e-1264
skeletal muscle tissue5.46e-1262
striated muscle tissue5.46e-1262
myotome5.46e-1262
epithelium6.83e-12306
unilaminar epithelium1.03e-11148
trunk mesenchyme1.16e-11122
multi-cellular organism2.45e-11656
trunk4.77e-11199
epithelial tube5.22e-11117
anatomical cluster9.42e-11373
vasculature9.97e-1178
vascular system9.97e-1178
anatomical system6.95e-10624
splanchnic layer of lateral plate mesoderm9.44e-1083
anatomical group1.09e-09625
multilaminar epithelium1.25e-0983
artery3.11e-0942
arterial blood vessel3.11e-0942
arterial system3.11e-0942
subdivision of head9.75e-0949
epithelial tube open at both ends1.29e-0859
blood vessel1.29e-0859
blood vasculature1.29e-0859
vascular cord1.29e-0859
systemic artery3.13e-0833
systemic arterial system3.13e-0833
circulatory system8.50e-08112
anatomical conduit9.64e-08240
cardiovascular system1.02e-07109
vessel1.27e-0768
surface structure3.34e-0799
head3.77e-0756
pigment epithelium of eye7.26e-0711
anterior region of body7.29e-0762
craniocervical region7.29e-0762


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)
MA0003.10.0214529
MA0004.10.71247
MA0006.10.532262
MA0007.10.6918
MA0009.11.20602
MA0014.10.0695829
MA0017.10.577281
MA0019.10.873355
MA0024.11.09684
MA0025.11.34373
MA0027.12.83281
MA0028.10.550763
MA0029.11.11704
MA0030.11.10506
MA0031.11.03735
MA0038.10.824639
MA0040.11.12314
MA0041.10.732902
MA0042.10.697662
MA0043.11.20635
MA0046.11.19471
MA0048.10.25531
MA0050.10.69864
MA0051.10.820063
MA0052.11.12718
MA0055.10.125954
MA0056.10
MA0057.10.248209
MA0058.10.605914
MA0059.10.604454
MA0060.10.393285
MA0061.10.360128
MA0063.10
MA0066.10.825101
MA0067.11.53181
MA0068.10.313194
MA0069.11.19071
MA0070.11.17908
MA0071.10.782546
MA0072.11.1744
MA0073.10.00636811
MA0074.10.819248
MA0076.10.623864
MA0077.11.16637
MA0078.10.926725
MA0081.10.604638
MA0083.11.21381
MA0084.11.72172
MA0087.11.17185
MA0088.10.536981
MA0089.10
MA0090.10.640115
MA0091.14.13319
MA0092.10.673508
MA0093.10.535768
MA0095.10
MA0098.10
MA0100.10.83965
MA0101.10.539569
MA0103.10.521546
MA0105.10.232357
MA0106.10.869173
MA0107.10.453492
MA0108.21.03412
MA0109.10
MA0111.10.655276
MA0113.10.886811
MA0114.10.447443
MA0115.11.45393
MA0116.10.457606
MA0117.11.24497
MA0119.10.586221
MA0122.11.27173
MA0124.11.41151
MA0125.11.32534
MA0130.10
MA0131.10.94608
MA0132.10
MA0133.10
MA0135.11.23748
MA0136.11.94315
MA0139.10.344952
MA0140.10.779643
MA0141.10.602484
MA0142.11.00381
MA0143.10.887001
MA0144.10.430413
MA0145.10.195821
MA0146.10.481
MA0147.10.46175
MA0148.10.739888
MA0149.10.769072
MA0062.20.353589
MA0035.20.778873
MA0039.20.0247757
MA0138.20.928035
MA0002.20.379056
MA0137.20.558189
MA0104.20.392359
MA0047.20.856092
MA0112.20.187982
MA0065.20.199162
MA0150.10.633493
MA0151.10
MA0152.10.78681
MA0153.11.30799
MA0154.10.649108
MA0155.10.180766
MA0156.10.560797
MA0157.10.97481
MA0158.10
MA0159.10.462502
MA0160.10.756582
MA0161.10
MA0162.10.0928415
MA0163.10.0725493
MA0164.10.90014
MA0080.20.535868
MA0018.20.870662
MA0099.21.85039
MA0079.20.000248021
MA0102.21.75932
MA0258.10.418966
MA0259.10.471671
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
FOS#235336.74846648167080.005032452776317940.0234740659002175
TRIM28#10155313.94289378394690.0005972858184258420.00499679057918748



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.