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{{Coexpression_clusters
{
|coexpression_dpi_cluster_scores_median=0,0

Latest revision as of 10:27, 17 September 2013


Full id: C84_choriocarcinoma_pancreatic_Wilms_Mallassezderived_thymus_salivary_colon



Phase1 CAGE Peaks

Hg19::chr10:104523254..104523259,+p1@AY656173
Hg19::chr10:180364..180371,+p22@ZMYND11
Hg19::chr10:180416..180429,+p9@ZMYND11
Hg19::chr10:43871094..43871105,+p@chr10:43871094..43871105
+
Hg19::chr10:43871125..43871134,+p@chr10:43871125..43871134
+
Hg19::chr10:88734366..88734378,-p@chr10:88734366..88734378
-
Hg19::chr10:98045175..98045180,-p@chr10:98045175..98045180
-
Hg19::chr11:118829041..118829050,+p9@UPK2
Hg19::chr11:129719878..129719909,+p4@TMEM45B
Hg19::chr11:129720358..129720368,+p3@TMEM45B
Hg19::chr11:129720377..129720381,+p5@TMEM45B
Hg19::chr11:71900572..71900600,+p5@FOLR1
Hg19::chr11:71900617..71900626,+p9@FOLR1
Hg19::chr11:71900651..71900661,+p7@FOLR1
Hg19::chr11:78075139..78075168,-p@chr11:78075139..78075168
-
Hg19::chr11:78075190..78075199,-p@chr11:78075190..78075199
-
Hg19::chr11:78075217..78075237,-p@chr11:78075217..78075237
-
Hg19::chr12:110114268..110114270,-p@chr12:110114268..110114270
-
Hg19::chr12:6422294..6422299,+p3@PLEKHG6
Hg19::chr12:7867067..7867070,+p@chr12:7867067..7867070
+
Hg19::chr12:8116908..8116910,-p@chr12:8116908..8116910
-
Hg19::chr12:8123169..8123195,-p@chr12:8123169..8123195
-
Hg19::chr13:111142867..111142874,+p@chr13:111142867..111142874
+
Hg19::chr13:114188109..114188155,+p@chr13:114188109..114188155
+
Hg19::chr13:44770203..44770212,+p@chr13:44770203..44770212
+
Hg19::chr13:52555605..52555624,-p@chr13:52555605..52555624
-
Hg19::chr13:99607719..99607763,-p@chr13:99607719..99607763
-
Hg19::chr13:99628257..99628268,-p@chr13:99628257..99628268
-
Hg19::chr14:23284322..23284345,+p@chr14:23284322..23284345
+
Hg19::chr14:24732838..24732850,-p8@TGM1
Hg19::chr14:35120236..35120240,-p@chr14:35120236..35120240
-
Hg19::chr14:65703391..65703398,-p@chr14:65703391..65703398
-
Hg19::chr14:69212445..69212449,-p@chr14:69212445..69212449
-
Hg19::chr14:96912885..96912895,+p@chr14:96912885..96912895
+
Hg19::chr14:99927301..99927311,-p@chr14:99927301..99927311
-
Hg19::chr14:99936479..99936482,-p@chr14:99936479..99936482
-
Hg19::chr14:99941657..99941686,-p@chr14:99941657..99941686
-
Hg19::chr15:21145765..21145768,+p1@LOC348120
Hg19::chr15:47631257..47631269,+p12@SEMA6D
Hg19::chr15:47631272..47631287,+p5@SEMA6D
Hg19::chr15:47660175..47660177,+p@chr15:47660175..47660177
+
Hg19::chr15:47677042..47677046,+p@chr15:47677042..47677046
+
Hg19::chr15:47677260..47677265,+p@chr15:47677260..47677265
+
Hg19::chr15:47772172..47772194,+p@chr15:47772172..47772194
+
Hg19::chr15:47826399..47826406,+p@chr15:47826399..47826406
+
Hg19::chr15:47827194..47827198,+p@chr15:47827194..47827198
+
Hg19::chr15:47879103..47879107,+p@chr15:47879103..47879107
+
Hg19::chr15:47894707..47894712,+p@chr15:47894707..47894712
+
Hg19::chr15:47894742..47894745,+p@chr15:47894742..47894745
+
Hg19::chr15:47902739..47902751,+p@chr15:47902739..47902751
+
Hg19::chr15:47904977..47904980,+p@chr15:47904977..47904980
+
Hg19::chr15:58793414..58793417,-p@chr15:58793414..58793417
-
Hg19::chr15:63124822..63124829,+p@chr15:63124822..63124829
+
Hg19::chr15:63124864..63124869,+p@chr15:63124864..63124869
+
Hg19::chr15:72460468..72460473,-p@chr15:72460468..72460473
-
Hg19::chr15:72462800..72462811,-p@chr15:72462800..72462811
-
Hg19::chr15:90956928..90956977,+p@chr15:90956928..90956977
+
Hg19::chr16:57945787..57945794,-p@chr16:57945787..57945794
-
Hg19::chr16:57945799..57945809,-p@chr16:57945799..57945809
-
Hg19::chr16:81105625..81105648,+p@chr16:81105625..81105648
+
Hg19::chr16:81105657..81105669,+p@chr16:81105657..81105669
+
Hg19::chr16:87885491..87885503,-p@chr16:87885491..87885503
-
Hg19::chr16:88831461..88831505,-p@chr16:88831461..88831505
-
Hg19::chr17:25568727..25568737,-p@chr17:25568727..25568737
-
Hg19::chr17:29815086..29815095,+p7@RAB11FIP4
Hg19::chr17:45928798..45928824,+p@chr17:45928798..45928824
+
Hg19::chr17:47979460..47979473,+p@chr17:47979460..47979473
+
Hg19::chr17:64413661..64413687,+p@chr17:64413661..64413687
+
Hg19::chr17:72749237..72749249,+p@chr17:72749237..72749249
+
Hg19::chr17:79166343..79166352,-p@chr17:79166343..79166352
-
Hg19::chr17:79166374..79166392,-p@chr17:79166374..79166392
-
Hg19::chr17:79166560..79166583,+p@chr17:79166560..79166583
+
Hg19::chr18:11880823..11880832,+p@chr18:11880823..11880832
+
Hg19::chr18:11880835..11880850,+p@chr18:11880835..11880850
+
Hg19::chr18:57376516..57376545,+p@chr18:57376516..57376545
+
Hg19::chr18:60755714..60755742,+p@chr18:60755714..60755742
+
Hg19::chr18:6683324..6683360,+p@chr18:6683324..6683360
+
Hg19::chr18:6683365..6683372,+p@chr18:6683365..6683372
+
Hg19::chr18:6683373..6683396,+p@chr18:6683373..6683396
+
Hg19::chr18:6683397..6683410,+p@chr18:6683397..6683410
+
Hg19::chr19:17422893..17422904,+p@chr19:17422893..17422904
+
Hg19::chr19:38827799..38827808,+p9@CATSPERG
Hg19::chr19:39314362..39314374,-p@chr19:39314362..39314374
-
Hg19::chr19:39728474..39728484,-p@chr19:39728474..39728484
-
Hg19::chr19:39799144..39799167,-p@chr19:39799144..39799167
-
Hg19::chr19:40128244..40128250,+p@chr19:40128244..40128250
+
Hg19::chr19:40146547..40146563,+p1@LGALS16
Hg19::chr19:40146564..40146569,+p2@LGALS16
Hg19::chr19:41318010..41318016,-p@chr19:41318010..41318016
-
Hg19::chr19:51021842..51021852,-p14@LRRC4B
Hg19::chr19:53554417..53554419,+p@chr19:53554417..53554419
+
Hg19::chr19:54158391..54158393,+p@chr19:54158391..54158393
+
Hg19::chr19:7854634..7854677,+p@chr19:7854634..7854677
+
Hg19::chr1:116260596..116260605,-p@chr1:116260596..116260605
-
Hg19::chr1:116915085..116915100,+p47@ATP1A1
Hg19::chr1:12030696..12030711,+p@chr1:12030696..12030711
+
Hg19::chr1:16894621..16894652,-p@chr1:16894621..16894652
-
Hg19::chr1:175337138..175337139,-p@chr1:175337138..175337139
-
Hg19::chr1:204426293..204426304,-p@chr1:204426293..204426304
-
Hg19::chr1:228917012..228917024,-p@chr1:228917012..228917024
-
Hg19::chr1:24927262..24927267,+p@chr1:24927262..24927267
+
Hg19::chr1:24927317..24927324,+p@chr1:24927317..24927324
+
Hg19::chr1:24927340..24927347,+p@chr1:24927340..24927347
+
Hg19::chr1:24927360..24927363,+p@chr1:24927360..24927363
+
Hg19::chr1:24927416..24927423,+p@chr1:24927416..24927423
+
Hg19::chr1:25246232..25246236,+p@chr1:25246232..25246236
+
Hg19::chr1:54356404..54356408,-p5@YIPF1
Hg19::chr1:57035544..57035561,-p@chr1:57035544..57035561
-
Hg19::chr1:95318801..95318810,+p@chr1:95318801..95318810
+
Hg19::chr20:42780517..42780522,+p@chr20:42780517..42780522
+
Hg19::chr20:42780550..42780563,+p@chr20:42780550..42780563
+
Hg19::chr20:42780570..42780577,+p@chr20:42780570..42780577
+
Hg19::chr20:48864193..48864206,-p@chr20:48864193..48864206
-
Hg19::chr20:55154489..55154499,+p@chr20:55154489..55154499
+
Hg19::chr20:55154504..55154509,+p@chr20:55154504..55154509
+
Hg19::chr20:55154517..55154524,+p@chr20:55154517..55154524
+
Hg19::chr20:57444099..57444121,+p@chr20:57444099..57444121
+
Hg19::chr21:40693544..40693556,-p12@BRWD1
Hg19::chr21:44027711..44027715,-p@chr21:44027711..44027715
-
Hg19::chr22:21386843..21386862,-p1@SLC7A4
Hg19::chr22:21387127..21387141,-p3@SLC7A4
Hg19::chr22:21387144..21387157,-p2@SLC7A4
Hg19::chr22:21387219..21387231,-p5@SLC7A4
Hg19::chr22:36677325..36677328,+p@chr22:36677325..36677328
+
Hg19::chr22:37593734..37593766,-p6@C1QTNF6
Hg19::chr2:106468611..106468642,+p@chr2:106468611..106468642
+
Hg19::chr2:24585157..24585182,-p@chr2:24585157..24585182
-
Hg19::chr2:63842411..63842435,+p@chr2:63842411..63842435
+
Hg19::chr2:64073187..64073217,+p7@UGP2
Hg19::chr2:64073244..64073249,+p20@UGP2
Hg19::chr2:83744957..83744980,-p@chr2:83744957..83744980
-
Hg19::chr2:86491426..86491435,-p@chr2:86491426..86491435
-
Hg19::chr2:86491443..86491453,-p@chr2:86491443..86491453
-
Hg19::chr2:86491506..86491526,-p@chr2:86491506..86491526
-
Hg19::chr2:97171335..97171339,-p4@NEURL3
Hg19::chr3:134070021..134070025,-p@chr3:134070021..134070025
-
Hg19::chr3:135741866..135741908,+p7@PPP2R3A
Hg19::chr3:171842808..171842842,+p@chr3:171842808..171842842
+
Hg19::chr3:17279717..17279732,-p@chr3:17279717..17279732
-
Hg19::chr3:183685589..183685598,-p@chr3:183685589..183685598
-
Hg19::chr3:183685654..183685662,-p@chr3:183685654..183685662
-
Hg19::chr3:32115811..32115821,-p@chr3:32115811..32115821
-
Hg19::chr3:42194174..42194205,+p@chr3:42194174..42194205
+
Hg19::chr3:42907686..42907687,+p@chr3:42907686..42907687
+
Hg19::chr3:61598117..61598119,+p@chr3:61598117..61598119
+
Hg19::chr4:111397140..111397177,+p5@ENPEP
Hg19::chr4:141686304..141686315,+p@chr4:141686304..141686315
+
Hg19::chr4:183164548..183164562,+p4@ODZ3
Hg19::chr4:53617129..53617135,+p@chr4:53617129..53617135
+
Hg19::chr4:89080129..89080138,-p16@ABCG2
Hg19::chr4:89080205..89080219,-p5@ABCG2
Hg19::chr4:89080362..89080367,-p25@ABCG2
Hg19::chr4:89574768..89574807,+p@chr4:89574768..89574807
+
Hg19::chr5:122079128..122079137,-p@chr5:122079128..122079137
-
Hg19::chr5:122079143..122079157,-p@chr5:122079143..122079157
-
Hg19::chr5:131329923..131329950,-p16@ACSL6
Hg19::chr5:167709436..167709444,+p@chr5:167709436..167709444
+
Hg19::chr5:17664162..17664181,+p@chr5:17664162..17664181
+
Hg19::chr5:1882634..1882643,-p@chr5:1882634..1882643
-
Hg19::chr5:5447673..5447685,+p@chr5:5447673..5447685
+
Hg19::chr6:10419884..10419898,-p11@TFAP2A
Hg19::chr6:111598263..111598273,+p@chr6:111598263..111598273
+
Hg19::chr6:111598285..111598299,+p@chr6:111598285..111598299
+
Hg19::chr6:111598307..111598326,+p@chr6:111598307..111598326
+
Hg19::chr6:111599825..111599830,+p@chr6:111599825..111599830
+
Hg19::chr6:11243959..11243976,-p@chr6:11243959..11243976
-
Hg19::chr6:159246887..159246895,+p@chr6:159246887..159246895
+
Hg19::chr6:159246910..159246927,+p@chr6:159246910..159246927
+
Hg19::chr6:164092689..164092695,+p3@uc003quk.1
Hg19::chr6:168813785..168813789,-p@chr6:168813785..168813789
-
Hg19::chr6:32534818..32534824,-p@chr6:32534818..32534824
-
Hg19::chr6:32534836..32534846,-p@chr6:32534836..32534846
-
Hg19::chr6:32534847..32534859,-p@chr6:32534847..32534859
-
Hg19::chr6:52876815..52876822,-p@chr6:52876815..52876822
-
Hg19::chr6:8158396..8158426,+p@chr6:8158396..8158426
+
Hg19::chr6:8358321..8358327,+p@chr6:8358321..8358327
+
Hg19::chr7:100454665..100454679,+p11@SLC12A9
Hg19::chr7:107621426..107621437,-p@chr7:107621426..107621437
-
Hg19::chr7:138349562..138349572,-p@chr7:138349562..138349572
-
Hg19::chr7:151772066..151772079,+p10@GALNT11
Hg19::chr7:151772140..151772147,+p14@GALNT11
Hg19::chr7:23504984..23505015,-p@chr7:23504984..23505015
-
Hg19::chr7:26122940..26122948,-p@chr7:26122940..26122948
-
Hg19::chr7:26122989..26122995,-p@chr7:26122989..26122995
-
Hg19::chr7:29152388..29152434,-p2@CPVL
Hg19::chr7:29152444..29152447,-p18@CPVL
Hg19::chr7:30389015..30389032,+p@chr7:30389015..30389032
+
Hg19::chr7:30389043..30389058,+p@chr7:30389043..30389058
+
Hg19::chr7:37532185..37532188,+p@chr7:37532185..37532188
+
Hg19::chr7:48494678..48494690,+p2@ABCA13
Hg19::chr7:48494711..48494722,+p3@ABCA13
Hg19::chr7:48494733..48494742,+p4@ABCA13
Hg19::chr7:64407700..64407712,+p@chr7:64407700..64407712
+
Hg19::chr7:99711960..99711971,-p14@TAF6
Hg19::chr7:99711987..99711992,-p16@TAF6
Hg19::chr8:102062552..102062564,+p@chr8:102062552..102062564
+
Hg19::chr8:102062574..102062582,+p@chr8:102062574..102062582
+
Hg19::chr8:135870427..135870454,+p@chr8:135870427..135870454
+
Hg19::chr8:136103083..136103088,+p@chr8:136103083..136103088
+
Hg19::chr8:142350638..142350683,+p1@LOC731779
Hg19::chr8:143834403..143834444,-p4@LYPD2
Hg19::chr8:144073030..144073072,+p@chr8:144073030..144073072
+
Hg19::chr8:22844858..22844865,+p27@RHOBTB2
Hg19::chr8:22844879..22844887,+p29@RHOBTB2
Hg19::chr8:22844913..22844935,+p13@RHOBTB2
Hg19::chr8:23313628..23313641,-p@chr8:23313628..23313641
-
Hg19::chr9:34484972..34484978,+p8@DNAI1
Hg19::chr9:4419394..4419412,-p@chr9:4419394..4419412
-
Hg19::chr9:4620436..4620441,-p@chr9:4620436..4620441
-
Hg19::chr9:4620442..4620450,-p@chr9:4620442..4620450
-
Hg19::chr9:99801414..99801432,-p1@CTSL2
Hg19::chrX:112083176..112083179,-p@chrX:112083176..112083179
-
Hg19::chrX:148769849..148769864,+p2@MAGEA11
Hg19::chrX:148769880..148769885,+p5@MAGEA11
Hg19::chrX:49819072..49819078,+p@chrX:49819072..49819078
+
Hg19::chrX:51577402..51577404,+p@chrX:51577402..51577404
+
Hg19::chrX:51577449..51577463,+p@chrX:51577449..51577463
+
Hg19::chrX:70319128..70319142,+p3@FOXO4
Hg19::chrY:9195450..9195471,+p1@TSPY4
p1@TSPY8


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

No GOStat results

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>disease_data<br>

Cell Type
Ontology termp-valuen
germ line cell2.73e-517
germ cell2.73e-517
epithelial cell of pancreas2.80e-114
Uber Anatomy
Ontology termp-valuen
placenta3.79e-114
allantois3.79e-114
chorion6.39e-077


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)
MA0003.10.000309256
MA0004.10.396695
MA0006.10.00165615
MA0007.10.156344
MA0009.10.33054
MA0014.12.08055e-10
MA0017.13.19547
MA0019.11.51672
MA0024.10.00454052
MA0025.10.0357089
MA0027.11.11148
MA0028.10.000426703
MA0029.10.565946
MA0030.10.779955
MA0031.10.365304
MA0038.10.731271
MA0040.11.50611
MA0041.10.624597
MA0042.11.13425
MA0043.10.166287
MA0046.10.311902
MA0048.10.0912881
MA0050.10.036225
MA0051.10.0538776
MA0052.10.212559
MA0055.10.349214
MA0056.10
MA0057.10.0528387
MA0058.10.405178
MA0059.10.22238
MA0060.10.118438
MA0061.10.00301494
MA0063.10
MA0066.10.939031
MA0067.10.31361
MA0068.10.00827881
MA0069.10.151397
MA0070.10.751529
MA0071.12.52241
MA0072.11.80112
MA0073.11.83134e-09
MA0074.10.384166
MA0076.10.00133429
MA0077.11.36101
MA0078.10.413288
MA0081.10.511865
MA0083.11.20953
MA0084.10.549288
MA0087.10.275945
MA0088.10.0407116
MA0089.10
MA0090.16.87514
MA0091.10.0239677
MA0092.10.265705
MA0093.10.371236
MA0095.10
MA0098.10
MA0100.10.0682887
MA0101.10.000826782
MA0103.13.24612
MA0105.10.00144157
MA0106.10.167194
MA0107.10.00529281
MA0108.20.110182
MA0109.10
MA0111.10.214739
MA0113.10.0576035
MA0114.11.83957
MA0115.10.0659516
MA0116.10.0713327
MA0117.10.656397
MA0119.10.321584
MA0122.10.237319
MA0124.10.052942
MA0125.10.305861
MA0130.10
MA0131.10.192273
MA0132.10
MA0133.10
MA0135.10.077275
MA0136.10.115829
MA0139.10.143767
MA0140.17.14961
MA0141.11.50507
MA0142.10.170667
MA0143.11.33069
MA0144.10.483459
MA0145.10.0160316
MA0146.11.43861e-05
MA0147.10.203494
MA0148.10.180789
MA0149.15.47796
MA0062.22.37003e-06
MA0035.211.5748
MA0039.20.00252134
MA0138.20.165469
MA0002.20.112779
MA0137.20.385
MA0104.20.0179447
MA0047.20.359483
MA0112.20.692413
MA0065.22.26757
MA0150.11.6279
MA0151.10
MA0152.10.193637
MA0153.10.52326
MA0154.10.170776
MA0155.10.562659
MA0156.10.00835726
MA0157.10.561423
MA0158.10
MA0159.10.423739
MA0160.10.58097
MA0161.10
MA0162.11.78843e-07
MA0163.15.34284e-07
MA0164.10.341622
MA0080.20.0479693
MA0018.20.270916
MA0099.20.730557
MA0079.20
MA0102.20.209284
MA0258.11.73556
MA0259.10.183035
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
GATA3#2625293.606661983374313.03431973552081e-092.54130969413037e-07
TAL1#6886172.318568417883490.001246244875151010.00837989753514658



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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