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Coexpression cluster:C3664

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Full id: C3664_immature_Eosinophils_CD19_CD34_CD8_Basophils_Natural



Phase1 CAGE Peaks

  Short description
Hg19::chr17:63052607..63052621,- p5@GNA13
Hg19::chr17:63052647..63052656,- p8@GNA13
Hg19::chr19:1067595..1067602,+ p13@HMHA1


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


GO IDGO nameFDR corrected p-value
GO:0001569patterning of blood vessels0.0286160956533637
GO:0030168platelet activation0.0286160956533637
GO:0009880embryonic pattern specification0.0286160956533637
GO:0048754branching morphogenesis of a tube0.0286160956533637
GO:0001763morphogenesis of a branching structure0.0286160956533637
GO:0022603regulation of anatomical structure morphogenesis0.0286160956533637
GO:0008360regulation of cell shape0.0286160956533637
GO:0022604regulation of cell morphogenesis0.0286160956533637
GO:0001701in utero embryonic development0.0286160956533637
GO:0007242intracellular signaling cascade0.0286160956533637
GO:0030334regulation of cell migration0.0286160956533637
GO:0051270regulation of cell motility0.0286160956533637
GO:0040012regulation of locomotion0.0286160956533637
GO:0040011locomotion0.0286160956533637
GO:0048770pigment granule0.0286160956533637
GO:0042470melanosome0.0286160956533637
GO:0035239tube morphogenesis0.0286160956533637
GO:0009792embryonic development ending in birth or egg hatching0.0286160956533637
GO:0043009chordate embryonic development0.0286160956533637
GO:0007596blood coagulation0.0286160956533637
GO:0050817coagulation0.0286160956533637
GO:0007599hemostasis0.0286160956533637
GO:0035295tube development0.0290793577129261
GO:0007389pattern specification process0.0290793577129261
GO:0050878regulation of body fluid levels0.0290793577129261
GO:0001525angiogenesis0.0290793577129261
GO:0042060wound healing0.0290793577129261
GO:0048514blood vessel morphogenesis0.0314582166780712
GO:0048646anatomical structure formation0.0316103854707933
GO:0001568blood vessel development0.0320774222547536
GO:0001944vasculature development0.0320774222547536
GO:0005057receptor signaling protein activity0.0331288121646884
GO:0007266Rho protein signal transduction0.0341158333290568
GO:0001775cell activation0.0367997456970307
GO:0016477cell migration0.0381693333830571
GO:0009790embryonic development0.0381693333830571
GO:0050793regulation of developmental process0.0381693333830571
GO:0003924GTPase activity0.0431248353376819



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
leukocyte1.31e-53136
hematopoietic stem cell2.41e-49168
angioblastic mesenchymal cell2.41e-49168
hematopoietic cell6.05e-48177
hematopoietic oligopotent progenitor cell4.96e-45161
hematopoietic multipotent progenitor cell4.96e-45161
hematopoietic lineage restricted progenitor cell1.19e-40120
nongranular leukocyte3.06e-38115
myeloid leukocyte1.41e-3272
myeloid cell1.11e-30108
common myeloid progenitor1.11e-30108
granulocyte monocyte progenitor cell1.19e-2967
classical monocyte4.17e-2742
CD14-positive, CD16-negative classical monocyte4.17e-2742
myeloid lineage restricted progenitor cell1.71e-2566
macrophage dendritic cell progenitor3.36e-2561
defensive cell1.20e-2448
phagocyte1.20e-2448
monopoietic cell2.13e-2359
monocyte2.13e-2359
monoblast2.13e-2359
promonocyte2.13e-2359
lymphoid lineage restricted progenitor cell3.94e-1352
lymphocyte1.20e-1253
common lymphoid progenitor1.20e-1253
nucleate cell9.70e-1255
stuff accumulating cell1.07e-1087
mature alpha-beta T cell5.68e-0918
alpha-beta T cell5.68e-0918
immature T cell5.68e-0918
mature T cell5.68e-0918
immature alpha-beta T cell5.68e-0918
motile cell1.15e-08386
mesenchymal cell1.57e-08354
dendritic cell1.95e-0810
connective tissue cell9.42e-08361
T cell2.69e-0725
pro-T cell2.69e-0725
granulocyte3.84e-078
Uber Anatomy
Ontology termp-valuen
hemolymphoid system8.44e-38108
hematopoietic system6.61e-3798
blood island6.61e-3798
immune system4.47e-3093
bone marrow6.09e-2676
bone element3.12e-2482
skeletal element3.89e-2090
skeletal system8.12e-17100
lateral plate mesoderm2.11e-11203
blood1.60e-0815
haemolymphatic fluid1.60e-0815
organism substance1.60e-0815
connective tissue2.54e-07371


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)
MA0003.12.05336
MA0004.10.826076
MA0006.10.639288
MA0007.10.804807
MA0009.11.3275
MA0014.12.44638
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
MA0048.10.341392
MA0050.10.81185
MA0051.10.936307
MA0052.11.24796
MA0055.11.06172
MA0056.10
MA0057.10.333427
MA0058.10.716037
MA0059.10.714521
MA0060.10.492218
MA0061.10.456531
MA0063.10
MA0066.10.941452
MA0067.11.65513
MA0068.10.405474
MA0069.11.31207
MA0070.11.30033
MA0071.10.897953
MA0072.11.29561
MA0073.10.407479
MA0074.10.935474
MA0076.10.734647
MA0077.11.28751
MA0078.11.04495
MA0081.10.714712
MA0083.11.33535
MA0084.11.84562
MA0087.11.29304
MA0088.11.31954
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
MA0111.10.767139
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
MA0146.13.00132
MA0147.10.565108
MA0148.10.854239
MA0149.13.38595
MA0062.20.449458
MA0035.20.894194
MA0039.22.15877
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
MA0156.11.60572
MA0157.11.09377
MA0158.10
MA0159.10.565904
MA0160.10.871361
MA0161.10
MA0162.13.52399
MA0163.11.84145
MA0164.11.01792
MA0080.21.55139
MA0018.20.987913
MA0099.20.902716
MA0079.24.10519
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
EGR1#195834.988179094810140.008056488137383440.0320305898427877
ELF1#199734.258097958807540.01295179875054610.0461741904662326
ETS1#211339.728760922202340.001085840092584840.00761561033036517
SIN3A#2594235.408884726815140.006318961977991520.0276382473414631
TFAP2C#7022310.80922860986020.0007916746575753130.00615099758685524



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.