Personal tools

Coexpression cluster:C3069

From FANTOM5_SSTAR

Jump to: navigation, search


Full id: C3069_CD19_Eosinophils_CD4_CD8_Natural_Peripheral_CD14



Phase1 CAGE Peaks

  Short description
Hg19::chr11:102188378..102188394,+ p@chr11:102188378..102188394
+
Hg19::chr2:136890178..136890205,+ p@chr2:136890178..136890205
+
Hg19::chr7:7855944..7855956,+ p@chr7:7855944..7855956
+


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
leukocyte1.13e-61136
nongranular leukocyte1.28e-58115
hematopoietic lineage restricted progenitor cell7.01e-51120
hematopoietic stem cell1.52e-46168
angioblastic mesenchymal cell1.52e-46168
lymphoid lineage restricted progenitor cell4.24e-4452
hematopoietic cell2.84e-43177
lymphocyte4.58e-4353
common lymphoid progenitor4.58e-4353
nucleate cell4.12e-4155
hematopoietic oligopotent progenitor cell2.33e-40161
hematopoietic multipotent progenitor cell2.33e-40161
mature alpha-beta T cell1.57e-2518
alpha-beta T cell1.57e-2518
immature T cell1.57e-2518
mature T cell1.57e-2518
immature alpha-beta T cell1.57e-2518
B cell5.06e-2414
classical monocyte8.93e-2142
CD14-positive, CD16-negative classical monocyte8.93e-2142
lymphocyte of B lineage1.10e-1924
pro-B cell1.10e-1924
T cell1.62e-1925
pro-T cell1.62e-1925
defensive cell2.18e-1748
phagocyte2.18e-1748
myeloid leukocyte1.12e-1572
CD8-positive, alpha-beta T cell3.33e-1511
intermediate monocyte6.15e-159
CD14-positive, CD16-positive monocyte6.15e-159
macrophage dendritic cell progenitor9.13e-1561
CD4-positive, alpha-beta T cell3.99e-146
monopoietic cell4.37e-1459
monocyte4.37e-1459
monoblast4.37e-1459
promonocyte4.37e-1459
mesenchymal cell6.43e-13354
granulocyte monocyte progenitor cell6.95e-1367
connective tissue cell2.41e-12361
myeloid lineage restricted progenitor cell5.80e-1266
motile cell2.46e-10386
myeloid cell6.13e-09108
common myeloid progenitor6.13e-09108
natural killer cell2.45e-083
pro-NK cell2.45e-083
naive T cell3.58e-083
multi fate stem cell6.29e-08427
single nucleate cell6.57e-083
mononuclear cell6.57e-083
plasmacytoid dendritic cell9.07e-083
basophil9.28e-083
stem cell1.09e-07441
somatic stem cell1.34e-07433
stuff accumulating cell5.03e-0787
Uber Anatomy
Ontology termp-valuen
hematopoietic system1.36e-1498
blood island1.36e-1498
hemolymphoid system1.99e-13108
immune system3.23e-1393
connective tissue1.46e-11371
bone marrow1.23e-1076
bone element2.02e-0982
skeletal element4.53e-0890
hemopoietic organ2.40e-077
immune organ2.40e-077
spleen8.37e-073
gastrointestinal system mesentery8.37e-073
stomach region8.37e-073
mesentery8.37e-073
gastrointestinal system serosa8.37e-073
mesentery of stomach8.37e-073
gut mesentery8.37e-073
dorsal mesentery8.37e-073
dorsal mesogastrium8.37e-073
peritoneal cavity8.37e-073
spleen primordium8.37e-073


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)
MA0003.10.401049
MA0004.10.826076
MA0006.10.639288
MA0007.10.804807
MA0009.11.3275
MA0014.10.118426
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
MA0050.11.90116
MA0051.10.936307
MA0052.11.24796
MA0055.10.557638
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
MA0073.10.668628
MA0074.10.935474
MA0076.10.734647
MA0077.11.28751
MA0078.11.04495
MA0081.10.714712
MA0083.11.33535
MA0084.11.84562
MA0087.11.29304
MA0088.10.715722
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
MA0141.11.6959
MA0142.11.12317
MA0143.11.00455
MA0144.10.531867
MA0145.10.273764
MA0146.10.107247
MA0147.10.565108
MA0148.10.854239
MA0149.10.884158
MA0062.20.449458
MA0035.20.894194
MA0039.20.432958
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
MA0156.10.669101
MA0157.11.09377
MA0158.10
MA0159.10.565904
MA0160.10.871361
MA0161.10
MA0162.10.149099
MA0163.10.122425
MA0164.11.01792
MA0080.20.643061
MA0018.20.987913
MA0099.20.902716
MA0079.20.0107199
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
BCL11A#53335328.36945510360714.37778126761649e-050.000776513413397755
IRF4#3662321.91451268674419.49854535978121e-050.00136004740722538
MEF2A#4205318.74323090964410.0001518243905622470.00194771987789344
MEF2C#4208227.54090299508270.001729119938369690.0106453405590304
NFKB1#479035.488063424193840.006049381815655430.0268573111479866
PAX5#507936.669565531177830.003370290999677260.0172256935360328
POU2F2#545239.106124057742520.001324165192682130.00879400283343056
SMC3#9126210.02995522995520.0126656379767470.045706318532652
SPI1#668838.204323508522730.001810593189410520.010880123251372



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.