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Coexpression cluster:C2703

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Full id: C2703_Reticulocytes_acute_chronic_Whole_blood_liver_CD34



Phase1 CAGE Peaks

  Short description
Hg19::chr2:62523382..62523391,+ p@chr2:62523382..62523391
+
Hg19::chr2:62523413..62523427,+ p@chr2:62523413..62523427
+
Hg19::chr2:62523430..62523448,+ p@chr2:62523430..62523448
+
Hg19::chr9:132641624..132641647,+ p6@USP20


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


Uber Anatomy
Ontology termp-valuen
blood7.53e-4015
haemolymphatic fluid7.53e-4015
organism substance7.53e-4015
spleen1.23e-073
gastrointestinal system mesentery1.23e-073
stomach region1.23e-073
mesentery1.23e-073
gastrointestinal system serosa1.23e-073
mesentery of stomach1.23e-073
gut mesentery1.23e-073
dorsal mesentery1.23e-073
dorsal mesogastrium1.23e-073
peritoneal cavity1.23e-073
spleen primordium1.23e-073
hematopoietic system2.90e-0798
blood island2.90e-0798
Disease
Ontology termp-valuen
myeloid leukemia3.20e-2231
leukemia3.74e-1739
chronic leukemia1.70e-168
hematologic cancer1.54e-1251
immune system cancer1.54e-1251


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
MA0014.10.524262
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
MA0055.10.396851
MA0056.10
MA0057.10.248209
MA0058.10.605914
MA0059.10.604454
MA0060.10.393285
MA0061.10.946082
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
MA0083.14.39922
MA0084.11.72172
MA0087.11.17185
MA0088.11.02755
MA0089.10
MA0090.10.640115
MA0091.12.85665
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
MA0107.11.1497
MA0108.22.35545
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
MA0136.10.832277
MA0139.10.344952
MA0140.13.05944
MA0141.10.602484
MA0142.11.00381
MA0143.10.887001
MA0144.10.430413
MA0145.10.195821
MA0146.10.8309
MA0147.10.46175
MA0148.10.739888
MA0149.11.813
MA0062.20.353589
MA0035.21.83323
MA0039.20.257871
MA0138.20.928035
MA0002.20.98779
MA0137.21.37305
MA0104.20.392359
MA0047.20.856092
MA0112.20.187982
MA0065.21.09513
MA0150.11.53138
MA0151.10
MA0152.10.78681
MA0153.11.30799
MA0154.11.21162
MA0155.10.533581
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
MA0099.20.7872
MA0079.20.0021048
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
CCNT2#90534.752151182721970.01386206996689490.0487339928391468
EP300#203346.77394172622320.0004748459821442640.00434716335283703
GATA1#2623413.56030814380042.95627390049268e-050.000614673083602538
GATA2#2624412.7449317335543.78864877853583e-050.000722840134785356
GTF2B#2959323.95787245074320.0001197754562855920.00162478619028587
HDAC2#3066413.41562023662633.0859005065161e-050.000627752947019936
HEY1#2346244.040111043105710.00375304636917980.0186392320010828
HMGN3#932436.133910792512940.006640696683324720.0283057595669639
JUND#372735.245997956403270.01043432751748420.0387054069116865
MXI1#460149.96157162875930.0001015224754950450.00142588835640492
SMARCA4#65974156.7659033078881.64738581138188e-091.44580946852867e-07
STAT1#6772315.52994062289940.000434088655175550.00405109329442223
STAT2#6773348.94782838983051.42094046481278e-050.000340370644964637
TAL1#6886429.86861667744021.25525650806991e-065.04804522319265e-05
TBP#690843.706770687096390.005296377814784350.0244669321743747
YY1#752844.911170749853860.00171871838055440.010697969422893



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.