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Coexpression cluster:C722

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Full id: C722_Mast_Natural_CD8_CD4_CD19_mature_Basophils



Phase1 CAGE Peaks

  Short description
Hg19::chr10:3934617..3934629,- p@chr10:3934617..3934629
-
Hg19::chr11:9594422..9594446,+ p@chr11:9594422..9594446
+
Hg19::chr14:50101898..50101922,- p3@DNAAF2
Hg19::chr19:14529156..14529170,+ p@chr19:14529156..14529170
+
Hg19::chr1:59249645..59249656,- p4@JUN
Hg19::chr1:59249688..59249703,- p3@JUN
Hg19::chr1:59249707..59249727,- p1@JUN
Hg19::chr1:59249732..59249749,- p2@JUN
Hg19::chr6:170122964..170122975,+ p@chr6:170122964..170122975
+
Hg19::chr6:31830554..31830563,- p4@NEU1
Hg19::chr9:123346608..123346621,+ p@chr9:123346608..123346621
+


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


p.valueFDRnGenesnPathwayName
2.38818258532104e-050.01511719576508222140Regulation of toll-like receptor signaling pathway (Wikipathways):WP1449



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:0035026leading edge cell differentiation0.00284936345388452
GO:0043202lysosomal lumen0.00284936345388452
GO:0031953negative regulation of protein amino acid autophosphorylation0.00284936345388452
GO:0031952regulation of protein amino acid autophosphorylation0.00284936345388452
GO:0005775vacuolar lumen0.00284936345388452
GO:0016997alpha-sialidase activity0.00508792435269485
GO:0004308exo-alpha-sialidase activity0.00508792435269485
GO:0001933negative regulation of protein amino acid phosphorylation0.00569822364226741
GO:0045763negative regulation of amino acid metabolic process0.00569822364226741
GO:0033239negative regulation of amine metabolic process0.00569822364226741
GO:0031974membrane-enclosed lumen0.0082293520490518
GO:0043233organelle lumen0.0082293520490518
GO:0030855epithelial cell differentiation0.0181924770505665
GO:0046777protein amino acid autophosphorylation0.0181924770505665
GO:0001932regulation of protein amino acid phosphorylation0.0181924770505665
GO:0033238regulation of amine metabolic process0.0181924770505665
GO:0006521regulation of amino acid metabolic process0.0181924770505665
GO:0016540protein autoprocessing0.0181924770505665
GO:0005765lysosomal membrane0.0191069383036046
GO:0005774vacuolar membrane0.0196412195283527
GO:0002009morphogenesis of an epithelium0.0196412195283527
GO:0042325regulation of phosphorylation0.0196412195283527
GO:0044437vacuolar part0.0196412195283527
GO:0051174regulation of phosphorus metabolic process0.0196412195283527
GO:0019220regulation of phosphate metabolic process0.0196412195283527
GO:0016485protein processing0.02608187441823
GO:0000228nuclear chromosome0.02608187441823
GO:0045944positive regulation of transcription from RNA polymerase II promoter0.0352913285426469
GO:0004553hydrolase activity, hydrolyzing O-glycosyl compounds0.0462804105238576
GO:0005764lysosome0.0462804105238576
GO:0000323lytic vacuole0.0462804105238576
GO:0005667transcription factor complex0.0465692044661635
GO:0016798hydrolase activity, acting on glycosyl bonds0.0465692044661635
GO:0045893positive regulation of transcription, DNA-dependent0.0465692044661635
GO:0005773vacuole0.0472603152259916
GO:0044446intracellular organelle part0.0483224709928153
GO:0044422organelle part0.0483224709928153



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




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)
MA0003.10.0370565
MA0004.10.92264
MA0006.10.605586
MA0007.10.332734
MA0009.10.79061
MA0014.10.36818
MA0017.11.26613
MA0019.10.486183
MA0024.11.64584
MA0025.10.921763
MA0027.12.39404
MA0028.10.224112
MA0029.10.707146
MA0030.10.696006
MA0031.10.633489
MA0038.10.443833
MA0040.10.712837
MA0041.10.366339
MA0042.10.337481
MA0043.11.85806
MA0046.10.779945
MA0048.10.185335
MA0050.10.897608
MA0051.10.439895
MA0052.14.13851
MA0055.10.136684
MA0056.10
MA0057.10.0465155
MA0058.11.34664
MA0059.11.34253
MA0060.12.4582
MA0061.10.330174
MA0063.10
MA0066.10.444231
MA0067.11.1037
MA0068.10.556338
MA0069.10.776171
MA0070.10.765217
MA0071.10.40788
MA0072.10.760818
MA0073.14.87136e-05
MA0074.10.439193
MA0076.10.278993
MA0077.10.753278
MA0078.10.533387
MA0081.10.26424
MA0083.10.79797
MA0084.11.28962
MA0087.10.758426
MA0088.10.248289
MA0089.10
MA0090.10.291627
MA0091.10.927876
MA0092.10.318032
MA0093.11.79894
MA0095.10
MA0098.10
MA0100.10.456802
MA0101.10.617985
MA0103.10.203171
MA0105.10.360248
MA0106.10.482519
MA0107.10.475157
MA0108.20.630531
MA0109.10
MA0111.11.48644
MA0113.10.498009
MA0114.10.908082
MA0115.11.02805
MA0116.10.159642
MA0117.10.827487
MA0119.10.250314
MA0122.10.852927
MA0124.10.98702
MA0125.10.904129
MA0130.10
MA0131.10.550695
MA0132.10
MA0133.10
MA0135.10.820382
MA0136.11.14308
MA0139.10.0922451
MA0140.11.84316
MA0141.10.2626
MA0142.10.602852
MA0143.10.498176
MA0144.10.142196
MA0145.10.115359
MA0146.10.184736
MA0147.10.488526
MA0148.10.372124
MA0149.10.396509
MA0062.20.0969238
MA0035.21.84093
MA0039.20.0944823
MA0138.20.534556
MA0002.20.358551
MA0137.20.229531
MA0104.20.760822
MA0047.20.47109
MA0112.20.106997
MA0065.20.28513
MA0150.10.781086
MA0151.10
MA0152.10.411494
MA0153.10.887528
MA0154.10.153348
MA0155.10.245306
MA0156.10.231442
MA0157.11.41182
MA0158.10
MA0159.10.162854
MA0160.10.386031
MA0161.10
MA0162.10.00470038
MA0163.10.00253231
MA0164.10.509774
MA0080.20.611699
MA0018.20.483823
MA0099.20.411824
MA0079.20.0235846
MA0102.21.32663
MA0258.10.135061
MA0259.10.504687
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
BCLAF1#977447.87369004004430.001154375086415280.00789481891494504
CCNT2#90563.456109951070530.003468924173267830.017621156212642
CHD2#110654.701828560962210.002363882154558910.0133956314888757
E2F4#187466.909851081064247.8773130924702e-050.00120718811748275
E2F6#187683.648840532143550.0002292448799299190.00252820549260832
ETS1#211354.422164055546520.003108363787165290.0163412063610065
FOS#235386.543967497377752.80888190396464e-069.71058646700306e-05
FOSL2#235546.156436583476980.002867376563988960.0155356889897512
GATA1#262378.629287000600282.99493398157953e-060.000101422798347012
GATA2#262478.110411103170724.54252138065835e-060.000141955831979227
GATA3#2625512.38023470782092.5558774340898e-050.000553000379819565
GTF2B#2959411.61593815793610.0002652948443140370.00284000904523511
GTF2F1#296244.63260395518460.007986368219740980.0322864562398981
HEY1#2346272.570979754703630.007126829840213170.0296328920169609
HSF1#3297459.74206060606064.35491575565215e-072.08634425047961e-05
IRF1#365953.471438069801770.008947162075865850.0339312487759669
JUN#372589.100239412608242.19796342409383e-071.16880398191922e-05
JUNB#3726719.47949351079531.16321089188912e-088.71481939297044e-07
JUND#372774.451149781190650.0002363774257855520.00257505183807419
MAFF#23764420.47831145088912.96388600973389e-050.000614299049356216
MEF2A#420558.519650413474570.0001520403533225680.00194977191314535
MEF2C#4208415.02231072459069.87232765848972e-050.00139087552721571
MXI1#460187.24477936637041.28440155682788e-065.12969843952378e-05
NFKB1#479062.993489140469360.007285564963029570.0301393139180007
NFYA#480058.375263954468420.0001648187285647030.00202798105473244
NFYB#480157.618087842516570.0002573976412403450.0027614126608629
POLR2A#5430101.952230160507340.00304073181841430.016133458158066
POU2F2#545254.139147298973870.004165676881088710.0198475879463515
RDBP#7936455.86851054182725.6826694055937e-072.62375026547657e-05
REST#597854.38637668914910.003222672881545890.0167000462972993
RFX5#599366.57158772392460.0001045005643418740.00145713410404552
SIN3A#2594273.442017553427810.001206753943353430.0081823135161909
SMARCB1#659846.637351193148150.002175555385092920.0125504213910583
SP2#6668511.8879684062933.10656322491346e-050.000628163323614206
TAF7#687944.15747978360870.01167992922291530.0426413160454453
TAL1#6886410.86131515543280.000342809309344170.00346354468981289
TCF12#693865.800617219374410.0002100358985732830.00244493303734899
TRIM28#1015546.760190925550010.002033335932317940.0118102203122937
YY1#752862.678820409011190.01273933791341470.0459373584345239
ZNF143#770244.90940965535560.006498015644185360.0278293387953364



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.