Personal tools

Coexpression cluster:C84

From FANTOM5_SSTAR

Revision as of 18:36, 12 September 2012 by Autoedit (talk | contribs)
Jump to: navigation, search


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
epithelial cell8.23e-22254
endo-epithelial cell2.20e-0843
endodermal cell4.13e-0859
Uber Anatomy
Ontology termp-valuen
organ8.83e-15511
ectoderm3.05e-13173
presumptive ectoderm3.05e-13173
ectoderm-derived structure4.14e-13169
regional part of nervous system8.13e-1394
nervous system8.13e-1394
central nervous system3.64e-1282
endoderm-derived structure3.03e-10169
endoderm3.03e-10169
presumptive endoderm3.03e-10169
adult organism6.20e-10115
embryo1.21e-09612
brain2.28e-0969
future brain2.28e-0969
organ part7.91e-09219
neural tube1.44e-0857
neural rod1.44e-0857
future spinal cord1.44e-0857
neural keel1.44e-0857
multi-cellular organism1.53e-08659
anterior region of body2.14e-08129
craniocervical region2.14e-08129
subdivision of digestive tract2.14e-08129
endodermal part of digestive tract2.14e-08129
digestive system2.17e-08155
digestive tract2.17e-08155
primitive gut2.17e-08155
head4.07e-08123
mixed endoderm/mesoderm-derived structure4.61e-08130
embryonic structure9.16e-08605
developing anatomical structure9.16e-08605
germ layer1.47e-07604
embryonic tissue1.47e-07604
presumptive structure1.47e-07604
epiblast (generic)1.47e-07604
regional part of brain1.96e-0759
neurectoderm2.04e-0790
neural plate2.47e-0786
presumptive neural plate2.47e-0786
foregut4.51e-0798
endo-epithelium4.60e-0782
anterior neural tube7.45e-0742
regional part of forebrain9.45e-0741
forebrain9.45e-0741
future forebrain9.45e-0741
Disease
Ontology termp-valuen
carcinoma4.75e-25106
cell type cancer1.25e-23143
cancer3.27e-12235
disease of cellular proliferation3.19e-11239


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)

{{{tfbs_overrepresentation_jaspar}}}



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

Retrieved from "http://f5-webapp4.gsc.riken.jp/resource_browser/index.php?title=Coexpression_cluster:C84&oldid=2140233"