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Coexpression cluster:C2439

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Full id: C2439_CD34_CD14_Basophils_Peripheral_Natural_CD19_CD8



Phase1 CAGE Peaks

  Short description
Hg19::chr17:76662391..76662395,- p@chr17:76662391..76662395
-
Hg19::chr1:25358982..25358992,+ p@chr1:25358982..25358992
+
Hg19::chr1:25358993..25359005,+ p@chr1:25358993..25359005
+
Hg19::chr1:25359025..25359045,+ p@chr1:25359025..25359045
+


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
classical monocyte3.34e-9642
CD14-positive, CD16-negative classical monocyte3.34e-9642
defensive cell1.02e-8248
phagocyte1.02e-8248
leukocyte8.51e-79136
nongranular leukocyte2.51e-75115
myeloid leukocyte1.70e-7172
hematopoietic lineage restricted progenitor cell6.28e-71120
myeloid lineage restricted progenitor cell4.84e-6866
monopoietic cell4.07e-6759
monocyte4.07e-6759
monoblast4.07e-6759
promonocyte4.07e-6759
granulocyte monocyte progenitor cell7.38e-6767
hematopoietic stem cell4.50e-65168
angioblastic mesenchymal cell4.50e-65168
macrophage dendritic cell progenitor1.43e-6461
hematopoietic cell5.80e-61177
hematopoietic oligopotent progenitor cell2.21e-57161
hematopoietic multipotent progenitor cell2.21e-57161
myeloid cell1.24e-45108
common myeloid progenitor1.24e-45108
stuff accumulating cell1.85e-4087
mesenchymal cell2.07e-23354
connective tissue cell1.23e-22361
intermediate monocyte1.53e-229
CD14-positive, CD16-positive monocyte1.53e-229
motile cell6.37e-20386
stem cell2.24e-17441
multi fate stem cell1.33e-16427
somatic stem cell3.83e-16433
lymphoid lineage restricted progenitor cell4.37e-1152
lymphocyte8.53e-1153
common lymphoid progenitor8.53e-1153
nucleate cell3.01e-1055
basophil2.75e-093
natural killer cell3.82e-093
pro-NK cell3.82e-093
single nucleate cell7.11e-093
mononuclear cell7.11e-093
non-classical monocyte5.83e-083
CD14-low, CD16-positive monocyte5.83e-083
somatic cell1.87e-07588
CD4-positive, alpha-beta T cell7.93e-076
Uber Anatomy
Ontology termp-valuen
bone marrow1.49e-6076
bone element2.89e-5582
hematopoietic system1.53e-5198
blood island1.53e-5198
immune system1.26e-4993
skeletal element2.66e-4990
hemolymphoid system1.02e-47108
skeletal system3.50e-43100
connective tissue1.38e-21371
musculoskeletal system4.37e-21167
lateral plate mesoderm1.99e-19203
mesoderm8.09e-09315
mesoderm-derived structure8.09e-09315
presumptive mesoderm8.09e-09315


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)
MA0003.10.0938548
MA0004.11.69588
MA0006.11.31813
MA0007.10.6918
MA0009.11.20602
MA0014.10.244769
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
MA0048.11.30988
MA0050.10.69864
MA0051.10.820063
MA0052.14.13471
MA0055.10.791759
MA0056.10
MA0057.10.248209
MA0058.11.47358
MA0059.11.47051
MA0060.11.80156
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
MA0088.10.182167
MA0089.10
MA0090.10.640115
MA0091.11.70187
MA0092.10.673508
MA0093.12.27878
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
MA0119.11.43218
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
MA0140.10.779643
MA0141.10.602484
MA0142.11.00381
MA0143.10.887001
MA0144.10.430413
MA0145.10.195821
MA0146.10.221129
MA0147.11.16748
MA0148.10.739888
MA0149.10.769072
MA0062.20.353589
MA0035.20.778873
MA0039.20.0247757
MA0138.20.928035
MA0002.20.379056
MA0137.20.558189
MA0104.21.01696
MA0047.20.856092
MA0112.20.551048
MA0065.20.199162
MA0150.10.633493
MA0151.10
MA0152.10.78681
MA0153.11.30799
MA0154.10.229241
MA0155.10.180766
MA0156.12.36058
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
MA0079.20.000248021
MA0102.21.75932
MA0258.10.418966
MA0259.11.1888
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
BCL3#602325.91032710280379.48553136097325e-050.00137400750320206
EBF1#187936.679850134926750.005184294118278910.0240448749186842
IRF4#3662316.43588451505810.0003669431395554610.00365818771974349
MEF2A#4205314.0574231822330.0005830038854186610.0048874893874811
MEF2C#4208330.9835158694685.56692972943475e-050.00094154586884605
PAX5#507935.002174148383370.01196533174786410.0434901956711622
POU2F2#545236.829593043306890.004860473775203740.022760302228781
TCF12#693837.975848676639820.003090920396013070.0162781824032681
USF2#739239.74414803880220.001718341848410070.0107192631887528



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.