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{{Coexpression_clusters
{
|coexpression_dpi_cluster_scores_median=0,0,

Latest revision as of 10:32, 17 September 2013


Full id: C104_Mast_Basophils_immature_CD14_CD34_eye_Natural



Phase1 CAGE Peaks

Hg19::chr10:119008587..119008609,+p@chr10:119008587..119008609
+
Hg19::chr10:22629327..22629380,+p@chr10:22629327..22629380
+
Hg19::chr10:22629385..22629413,+p@chr10:22629385..22629413
+
Hg19::chr10:70091066..70091074,+p41@HNRNPH3
Hg19::chr10:70845215..70845221,+p@chr10:70845215..70845221
+
Hg19::chr10:75670452..75670464,+p15@PLAU
Hg19::chr10:75670497..75670502,+p27@PLAU
Hg19::chr10:75670546..75670555,+p25@PLAU
Hg19::chr10:80827832..80827858,+p@chr10:80827832..80827858
+
Hg19::chr11:11140283..11140298,+p@chr11:11140283..11140298
+
Hg19::chr11:114042361..114042371,+p@chr11:114042361..114042371
+
Hg19::chr11:123950597..123950605,-p@chr11:123950597..123950605
-
Hg19::chr11:123986579..123986582,+p8@VWA5A
Hg19::chr11:18913178..18913190,-p@chr11:18913178..18913190
-
Hg19::chr11:35060106..35060117,-p@chr11:35060106..35060117
-
Hg19::chr11:66035836..66035852,+p5@RAB1B
Hg19::chr11:68049932..68049949,+p@chr11:68049932..68049949
+
Hg19::chr12:109221132..109221142,+p@chr12:109221132..109221142
+
Hg19::chr12:123355673..123355677,+p@chr12:123355673..123355677
+
Hg19::chr12:123367928..123367963,+p@chr12:123367928..123367963
+
Hg19::chr12:123373444..123373465,-p3@AK022083
Hg19::chr12:2027058..2027073,+p2@ENST00000544163
Hg19::chr12:49595765..49595807,-p@chr12:49595765..49595807
-
Hg19::chr12:52405627..52405641,+p@chr12:52405627..52405641
+
Hg19::chr12:52406753..52406758,+p@chr12:52406753..52406758
+
Hg19::chr12:69309135..69309157,+p@chr12:69309135..69309157
+
Hg19::chr12:9926395..9926410,+p@chr12:9926395..9926410
+
Hg19::chr13:102107644..102107646,+p@chr13:102107644..102107646
+
Hg19::chr13:110320109..110320114,-p@chr13:110320109..110320114
-
Hg19::chr13:33858530..33858557,+p@chr13:33858530..33858557
+
Hg19::chr14:107253174..107253177,+p@chr14:107253174..107253177
+
Hg19::chr14:107254686..107254688,+p@chr14:107254686..107254688
+
Hg19::chr14:25042788..25042795,-p@chr14:25042788..25042795
-
Hg19::chr14:25043949..25043954,-p@chr14:25043949..25043954
-
Hg19::chr14:25464405..25464415,-p@chr14:25464405..25464415
-
Hg19::chr14:75988851..75988862,+p3@BATF
Hg19::chr14:75990204..75990207,-p@chr14:75990204..75990207
-
Hg19::chr14:75990216..75990238,-p@chr14:75990216..75990238
-
Hg19::chr14:75990393..75990403,+p@chr14:75990393..75990403
+
Hg19::chr14:76011156..76011159,+p@chr14:76011156..76011159
+
Hg19::chr14:76093618..76093623,+p@chr14:76093618..76093623
+
Hg19::chr14:93118081..93118090,+p33@RIN3
Hg19::chr15:50555987..50555996,-p4@HDC
Hg19::chr15:74285218..74285223,+p@chr15:74285218..74285223
+
Hg19::chr15:86124935..86124950,+p47@AKAP13
Hg19::chr15:86126058..86126070,+p14@AKAP13
Hg19::chr16:1306063..1306088,+p1@TPSD1
Hg19::chr16:1309001..1309007,-p@chr16:1309001..1309007
-
Hg19::chr16:27254686..27254705,-p@chr16:27254686..27254705
-
Hg19::chr16:27297536..27297559,+p@chr16:27297536..27297559
+
Hg19::chr16:27297597..27297620,+p@chr16:27297597..27297620
+
Hg19::chr16:27341974..27341981,-p@chr16:27341974..27341981
-
Hg19::chr17:35848660..35848677,+p@chr17:35848660..35848677
+
Hg19::chr17:38498236..38498251,+p24@RARA
Hg19::chr17:57914836..57914848,-p@chr17:57914836..57914848
-
Hg19::chr17:80217542..80217565,+p@chr17:80217542..80217565
+
Hg19::chr17:80225355..80225360,-p@chr17:80225355..80225360
-
Hg19::chr17:8050682..8050689,-p@chr17:8050682..8050689
-
Hg19::chr17:8053906..8053911,-p16@PER1
Hg19::chr17:8055163..8055196,-p@chr17:8055163..8055196
-
Hg19::chr18:72919862..72919879,+p@chr18:72919862..72919879
+
Hg19::chr19:13943041..13943045,-p@chr19:13943041..13943045
-
Hg19::chr1:194021410..194021419,+p@chr1:194021410..194021419
+
Hg19::chr1:204433825..204433835,-p@chr1:204433825..204433835
-
Hg19::chr1:208040829..208040861,-p@chr1:208040829..208040861
-
Hg19::chr1:208041790..208041810,+p@chr1:208041790..208041810
+
Hg19::chr1:211500017..211500028,+p4@TRAF5
Hg19::chr1:211665830..211665832,-p5@RD3
Hg19::chr1:234746113..234746135,-p@chr1:234746113..234746135
-
Hg19::chr1:234746222..234746233,-p@chr1:234746222..234746233
-
Hg19::chr1:26394211..26394222,-p2@TRIM63
Hg19::chr1:51442887..51442897,+p@chr1:51442887..51442897
+
Hg19::chr1:8585424..8585441,+p@chr1:8585424..8585441
+
Hg19::chr1:87652214..87652226,+p@chr1:87652214..87652226
+
Hg19::chr20:46239342..46239384,-p@chr20:46239342..46239384
-
Hg19::chr20:47527269..47527280,+p@chr20:47527269..47527280
+
Hg19::chr20:47527319..47527327,+p@chr20:47527319..47527327
+
Hg19::chr20:61546414..61546426,-p@chr20:61546414..61546426
-
Hg19::chr20:62711742..62711760,-p16@RGS19
Hg19::chr21:44876530..44876542,-p@chr21:44876530..44876542
-
Hg19::chr21:46291662..46291669,+p@chr21:46291662..46291669
+
Hg19::chr22:46440393..46440404,+p@chr22:46440393..46440404
+
Hg19::chr2:102890300..102890303,-p@chr2:102890300..102890303
-
Hg19::chr2:102890553..102890560,+p@chr2:102890553..102890560
+
Hg19::chr2:102918664..102918670,+p@chr2:102918664..102918670
+
Hg19::chr2:102921765..102921775,-p@chr2:102921765..102921775
-
Hg19::chr2:129198690..129198730,+p@chr2:129198690..129198730
+
Hg19::chr2:191334654..191334665,-p@chr2:191334654..191334665
-
Hg19::chr2:192712167..192712178,+p@chr2:192712167..192712178
+
Hg19::chr2:203971678..203971694,+p@chr2:203971678..203971694
+
Hg19::chr2:219434730..219434737,-p@chr2:219434730..219434737
-
Hg19::chr2:232476642..232476652,-p@chr2:232476642..232476652
-
Hg19::chr2:240158723..240158738,+p@chr2:240158723..240158738
+
Hg19::chr2:43439913..43439961,+p@chr2:43439913..43439961
+
Hg19::chr2:43452693..43452706,-p@chr2:43452693..43452706
-
Hg19::chr2:43494674..43494682,-p@chr2:43494674..43494682
-
Hg19::chr2:74408903..74408905,+p@chr2:74408903..74408905
+
Hg19::chr3:148673507..148673511,+p@chr3:148673507..148673511
+
Hg19::chr3:194379490..194379494,+p@chr3:194379490..194379494
+
Hg19::chr3:194382239..194382248,-p@chr3:194382239..194382248
-
Hg19::chr3:32426693..32426725,+p@chr3:32426693..32426725
+
Hg19::chr3:37494463..37494467,-p@chr3:37494463..37494467
-
Hg19::chr3:39217751..39217754,+p@chr3:39217751..39217754
+
Hg19::chr3:39544357..39544362,-p@chr3:39544357..39544362
-
Hg19::chr3:52143667..52143678,-p@chr3:52143667..52143678
-
Hg19::chr3:63965180..63965183,+p@chr3:63965180..63965183
+
Hg19::chr3:63965199..63965211,+p@chr3:63965199..63965211
+
Hg19::chr3:63965367..63965410,+p@chr3:63965367..63965410
+
Hg19::chr3:63967092..63967120,+p@chr3:63967092..63967120
+
Hg19::chr3:71256933..71256980,-p@chr3:71256933..71256980
-
Hg19::chr3:71257632..71257638,-p@chr3:71257632..71257638
-
Hg19::chr4:102210033..102210054,-p@chr4:102210033..102210054
-
Hg19::chr4:102267113..102267120,-p4@BC038734
Hg19::chr4:164479989..164479993,-p@chr4:164479989..164479993
-
Hg19::chr4:175441901..175441909,-p@chr4:175441901..175441909
-
Hg19::chr4:175441997..175442010,-p@chr4:175441997..175442010
-
Hg19::chr4:55531069..55531072,+p@chr4:55531069..55531072
+
Hg19::chr4:55589865..55589867,+p@chr4:55589865..55589867
+
Hg19::chr4:55598235..55598239,+p@chr4:55598235..55598239
+
Hg19::chr4:6910966..6910998,+p11@TBC1D14
Hg19::chr4:6912718..6912721,-p@chr4:6912718..6912721
-
Hg19::chr4:6918766..6918775,+p@chr4:6918766..6918775
+
Hg19::chr4:89615287..89615307,+p@chr4:89615287..89615307
+
Hg19::chr4:89615318..89615326,+p@chr4:89615318..89615326
+
Hg19::chr4:95260150..95260154,+p@chr4:95260150..95260154
+
Hg19::chr4:95275784..95275794,-p@chr4:95275784..95275794
-
Hg19::chr5:102880097..102880102,-p@chr5:102880097..102880102
-
Hg19::chr5:102880115..102880126,-p@chr5:102880115..102880126
-
Hg19::chr5:102880145..102880156,-p@chr5:102880145..102880156
-
Hg19::chr5:102880238..102880241,-p@chr5:102880238..102880241
-
Hg19::chr5:108747424..108747436,-p@chr5:108747424..108747436
-
Hg19::chr5:149267445..149267449,+p@chr5:149267445..149267449
+
Hg19::chr5:150794473..150794487,+p@chr5:150794473..150794487
+
Hg19::chr5:173285551..173285555,-p@chr5:173285551..173285555
-
Hg19::chr5:179476329..179476356,-p@chr5:179476329..179476356
-
Hg19::chr5:179507817..179507822,-p@chr5:179507817..179507822
-
Hg19::chr5:179517526..179517567,-p@chr5:179517526..179517567
-
Hg19::chr5:86707965..86707982,+p@chr5:86707965..86707982
+
Hg19::chr6:138190841..138190851,+p@chr6:138190841..138190851
+
Hg19::chr6:138200103..138200115,+p@chr6:138200103..138200115
+
Hg19::chr6:138202233..138202243,+p@chr6:138202233..138202243
+
Hg19::chr6:157137665..157137709,-p@chr6:157137665..157137709
-
Hg19::chr6:157154072..157154094,+p@chr6:157154072..157154094
+
Hg19::chr6:163833586..163833600,+p@chr6:163833586..163833600
+
Hg19::chr6:170125256..170125267,-p@chr6:170125256..170125267
-
Hg19::chr6:35510078..35510095,+p@chr6:35510078..35510095
+
Hg19::chr6:35510165..35510177,+p@chr6:35510165..35510177
+
Hg19::chr6:35515792..35515827,+p@chr6:35515792..35515827
+
Hg19::chr6:5431321..5431328,+p@chr6:5431321..5431328
+
Hg19::chr7:107875966..107875974,+p@chr7:107875966..107875974
+
Hg19::chr7:117371534..117371545,-p@chr7:117371534..117371545
-
Hg19::chr7:117371907..117371913,+p@chr7:117371907..117371913
+
Hg19::chr7:117432550..117432557,+p@chr7:117432550..117432557
+
Hg19::chr7:117499585..117499593,+p@chr7:117499585..117499593
+
Hg19::chr7:138643448..138643459,-p@chr7:138643448..138643459
-
Hg19::chr7:138648579..138648581,-p@chr7:138648579..138648581
-
Hg19::chr7:138650425..138650430,+p@chr7:138650425..138650430
+
Hg19::chr7:138650434..138650440,+p@chr7:138650434..138650440
+
Hg19::chr7:138665870..138665905,-p4@KIAA1549
Hg19::chr7:138665915..138665946,-p3@KIAA1549
Hg19::chr7:29232648..29232659,+p@chr7:29232648..29232659
+
Hg19::chr7:37394629..37394635,+p@chr7:37394629..37394635
+
Hg19::chr8:134013990..134014000,+p@chr8:134013990..134014000
+
Hg19::chr8:134087711..134087720,-p14@SLA
Hg19::chr8:27256513..27256546,+p@chr8:27256513..27256546
+
Hg19::chr8:28223655..28223659,+p@chr8:28223655..28223659
+
Hg19::chr8:29107560..29107569,-p@chr8:29107560..29107569
-
Hg19::chr8:29172479..29172484,+p@chr8:29172479..29172484
+
Hg19::chr8:91014165..91014183,+p@chr8:91014165..91014183
+
Hg19::chr8:91014202..91014207,+p@chr8:91014202..91014207
+
Hg19::chr9:100264166..100264193,+p@chr9:100264166..100264193
+
Hg19::chr9:116113276..116113282,-p@chr9:116113276..116113282
-
Hg19::chr9:127040669..127040685,+p@chr9:127040669..127040685
+
Hg19::chr9:139595662..139595702,+p@chr9:139595662..139595702
+
Hg19::chr9:73036504..73036509,-p@chr9:73036504..73036509
-
Hg19::chr9:73100454..73100458,+p@chr9:73100454..73100458
+
Hg19::chr9:74979223..74979257,-p8@ZFAND5
Hg19::chr9:74980687..74980701,-p@chr9:74980687..74980701
-
Hg19::chrX:124097601..124097611,-p5@ODZ1
Hg19::chrX:48819077..48819118,+p@chrX:48819077..48819118
+
Hg19::chrX:55186081..55186097,-p6@FAM104B
Hg19::chrX:55186101..55186116,-p@chrX:55186101..55186116
-


Enriched pathways on this co-expression cluster<b>Summary:</b><br>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.<br><b>Analyst: </b>Emmanuel Dimont<br><br>link to source dataset<br>data

No results for this coexpression

Enriched Gene Ontology terms on this co-expression cluster<b>Summary:</b> 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. <br><b>Analyst:</b> Erik Arner<br><br>link to source dataset<br>data

GO IDGO nameFDR corrected p-value
GO:0050789regulation of biological process0.0117611210674096
GO:0007165signal transduction0.0117611210674096
GO:0065007biological regulation0.0117611210674096
GO:0007154cell communication0.0117611210674096
GO:0050794regulation of cellular process0.0117611210674096
GO:0030695GTPase regulator activity0.0187433768986224
GO:0004398histidine decarboxylase activity0.0187433768986224
GO:0031432titin binding0.0187433768986224
GO:0009966regulation of signal transduction0.0219531518181022
GO:0005096GTPase activator activity0.0219531518181022
GO:0007264small GTPase mediated signal transduction0.0256806715861687
GO:0008047enzyme activator activity0.0395456422424184
GO:0004871signal transducer activity0.0398203207331036
GO:0060089molecular transducer activity0.0398203207331036
GO:0030019tryptase activity0.039955865136738
GO:0009649entrainment of circadian clock0.0440579443643909
GO:0008243plasminogen activator activity0.0440579443643909
GO:0007242intracellular signaling cascade0.0449662500481875
GO:0048519negative regulation of biological process0.0449662500481875



Enriched sample ontology terms on this co-expression cluster<b>Summary:</b>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. <b>Analyst:</b> Hideya Kawaji <br><br>links to source dataset<br><br>cell_data<br>uberon_data<br><br>

Uber Anatomy
Ontology termp-valuen
bone marrow9.08e-0976
bone element3.31e-0882
skeletal element1.43e-0790
immune system2.32e-0793
hematopoietic system4.88e-0798
blood island4.88e-0798
skeletal system6.45e-07100


Overrepresented TFBS (DNA) motifs on this co-expression cluster<b>Summary:</b>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. <b>Analyst:</b> Michiel de Hoon <br><br>link to source data <br> Novel motifs <br>data <br><br> Jaspar motifs <br>data

Novel motifs



JASPAR motifs

Motifs-log10(p-value)
MA0003.11.04519e-10
MA0004.10.0337561
MA0006.10.00488105
MA0007.17.28277
MA0009.10.252275
MA0014.19.19136e-11
MA0017.10.0842938
MA0019.10.107561
MA0024.10.279519
MA0025.10.787061
MA0027.11.18893
MA0028.10.00118779
MA0029.10.801454
MA0030.11.84935
MA0031.11.45691
MA0038.10.0286949
MA0040.11.53424
MA0041.10.642728
MA0042.11.77391
MA0043.10.103067
MA0046.10.451696
MA0048.10.118502
MA0050.10.164255
MA0051.10.122149
MA0052.10.328409
MA0055.10.255716
MA0056.10
MA0057.10.00774604
MA0058.10.0247001
MA0059.10.0455035
MA0060.10.00578658
MA0061.10.34194
MA0063.10
MA0066.10.00980944
MA0067.10.405247
MA0068.10.00495297
MA0069.10.233677
MA0070.11.01699
MA0071.10.51004
MA0072.10.412565
MA0073.10
MA0074.10.474345
MA0076.10.000168124
MA0077.10.205678
MA0078.10.65736
MA0081.10.96048
MA0083.10.490007
MA0084.11.91671
MA0087.10.669069
MA0088.10.00729626
MA0089.10
MA0090.10.0789211
MA0091.10.735405
MA0092.10.0182456
MA0093.10.0408027
MA0095.10
MA0098.10
MA0100.10.246799
MA0101.10.165664
MA0103.10.00822744
MA0105.10.186769
MA0106.10.017624
MA0107.10.224564
MA0108.21.0989
MA0109.10
MA0111.10.45253
MA0113.19.69616
MA0114.10.149034
MA0115.10.094847
MA0116.10.0365503
MA0117.10.127891
MA0119.10.148793
MA0122.10.34054
MA0124.10.570022
MA0125.10.189547
MA0130.10
MA0131.10.0998776
MA0132.10
MA0133.10
MA0135.10.122831
MA0136.11.77962
MA0139.10.0171321
MA0140.14.27303
MA0141.10.122236
MA0142.10.694177
MA0143.10.967211
MA0144.11.22732
MA0145.10.00333134
MA0146.13.37157e-08
MA0147.10.0134151
MA0148.10.870404
MA0149.10.00084914
MA0062.23.23904e-05
MA0035.23.01491
MA0039.20
MA0138.20.458531
MA0002.22.13562
MA0137.20.098668
MA0104.20.00285352
MA0047.20.425755
MA0112.20.115485
MA0065.20.0207055
MA0150.10.63478
MA0151.10
MA0152.10.708125
MA0153.10.699407
MA0154.10.00690786
MA0155.10.00061134
MA0156.10.978719
MA0157.10.842613
MA0158.10
MA0159.10.0645375
MA0160.10.290292
MA0161.10
MA0162.12.78912e-12
MA0163.10.00075332
MA0164.10.564313
MA0080.22.51086
MA0018.20.312997
MA0099.20.155099
MA0079.20
MA0102.20.259495
MA0258.11.61529
MA0259.10.00920552
MA0442.10



ENCODE TF ChIP-seq peak enrichment analysis<b>Summary:</b> 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. <br><b>Analyst:</b> Erik Arner<br><br>link to source dataset<br><br>data

(#promoters = Number of promoters in this coexpression cluster that have ChIP signal of the TF)

TF#promotersEnrichmentp-valueq-value
GATA1#2623382.831273128925374.78191682440238e-093.85949467715426e-07
GATA2#2624493.431327774418381.18635036802646e-142.044575017926e-12
JUN#3725261.787547027476620.002837077648601480.0153826992286517
NR3C1#2908362.961696922649614.14717299369646e-093.39175098111719e-07
SMARCA4#659754.306755585381540.006529422054946450.0279535277719431
TAL1#6886182.954039012054534.60944866978425e-050.000809766542680567



Relative expression of the co-expression cluster<b>Summary:</b>Co-expression clusters are compared against FANTOM5 samples to obtain relative expression. <br><b>Analyst:</b>NA<br><br>link to data source<br> data

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