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Coexpression cluster:C133

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Full id: C133_signet_gall_small_kidney_colon_ductal_adenocarcinoma



Phase1 CAGE Peaks

Hg19::chr10:105812536..105812558,+p@chr10:105812536..105812558
+
Hg19::chr10:6777736..6777754,-p@chr10:6777736..6777754
-
Hg19::chr10:6779446..6779460,+p2@ENST00000417112
Hg19::chr10:98336837..98336873,-p24@TM9SF3
Hg19::chr10:98370687..98370694,-p@chr10:98370687..98370694
-
Hg19::chr11:67124405..67124419,-p13@POLD4
Hg19::chr12:15885722..15885733,-p@chr12:15885722..15885733
-
Hg19::chr12:18400438..18400444,-p@chr12:18400438..18400444
-
Hg19::chr12:18415665..18415682,+p@chr12:18415665..18415682
+
Hg19::chr12:18951148..18951185,+p@chr12:18951148..18951185
+
Hg19::chr12:71559332..71559334,-p@chr12:71559332..71559334
-
Hg19::chr12:93412598..93412606,-p@chr12:93412598..93412606
-
Hg19::chr13:74185074..74185088,+p@chr13:74185074..74185088
+
Hg19::chr13:74185102..74185107,+p@chr13:74185102..74185107
+
Hg19::chr13:74185269..74185294,+p@chr13:74185269..74185294
+
Hg19::chr13:74185299..74185308,+p@chr13:74185299..74185308
+
Hg19::chr13:74185317..74185327,+p@chr13:74185317..74185327
+
Hg19::chr14:101373702..101373710,-p@chr14:101373702..101373710
-
Hg19::chr14:101373754..101373767,-p@chr14:101373754..101373767
-
Hg19::chr14:54581722..54581743,-p@chr14:54581722..54581743
-
Hg19::chr14:63785645..63785649,-p1@GPHB5
Hg19::chr15:60662919..60662931,-p@chr15:60662919..60662931
-
Hg19::chr15:60662957..60662966,-p@chr15:60662957..60662966
-
Hg19::chr16:2031433..2031447,-p2@NOXO1
Hg19::chr16:2031464..2031475,-p1@NOXO1
Hg19::chr16:2141414..2141444,+p@chr16:2141414..2141444
+
Hg19::chr16:2141513..2141528,+p@chr16:2141513..2141528
+
Hg19::chr16:85016361..85016372,+p@chr16:85016361..85016372
+
Hg19::chr17:39928474..39928485,-p17@JUP
Hg19::chr17:39928501..39928513,-p10@JUP
Hg19::chr17:39928947..39928958,-p19@JUP
Hg19::chr17:50828983..50828988,+p@chr17:50828983..50828988
+
Hg19::chr17:51139124..51139129,+p@chr17:51139124..51139129
+
Hg19::chr17:56492808..56492818,-p3@AB527734
Hg19::chr17:56492824..56492866,-p1@AB527734
Hg19::chr17:56492878..56492893,-p2@AB527734
Hg19::chr17:56492937..56492946,-p11@RNF43
Hg19::chr17:56492953..56492966,-p9@RNF43
Hg19::chr17:56492989..56493006,-p8@RNF43
Hg19::chr17:56493024..56493038,-p14@RNF43
Hg19::chr17:56493069..56493077,-p10@RNF43
Hg19::chr17:67171837..67171845,-p3@ABCA10
Hg19::chr17:67171909..67171949,-p6@ABCA10
Hg19::chr17:67171957..67171968,-p9@ABCA10
Hg19::chr17:73089589..73089617,+p5@SLC16A5
Hg19::chr17:73091198..73091208,-p@chr17:73091198..73091208
-
Hg19::chr17:73642372..73642390,+p4@C17orf110
Hg19::chr17:73642401..73642431,+p1@C17orf110
Hg19::chr17:73642486..73642498,+p5@C17orf110
Hg19::chr17:73843311..73843323,-p10@WBP2
Hg19::chr17:73843328..73843339,-p11@WBP2
Hg19::chr17:74459187..74459193,-p@chr17:74459187..74459193
-
Hg19::chr17:74459285..74459291,-p@chr17:74459285..74459291
-
Hg19::chr17:74459307..74459308,-p@chr17:74459307..74459308
-
Hg19::chr17:74459348..74459359,-p@chr17:74459348..74459359
-
Hg19::chr18:12701539..12701579,+p@chr18:12701539..12701579
+
Hg19::chr18:12701647..12701671,+p@chr18:12701647..12701671
+
Hg19::chr19:1654223..1654233,-p@chr19:1654223..1654233
-
Hg19::chr19:1654251..1654268,-p@chr19:1654251..1654268
-
Hg19::chr19:1753387..1753395,-p@chr19:1753387..1753395
-
Hg19::chr1:174872019..174872028,+p@chr1:174872019..174872028
+
Hg19::chr1:178009766..178009803,+p@chr1:178009766..178009803
+
Hg19::chr1:183976829..183976846,-p@chr1:183976829..183976846
-
Hg19::chr1:183976861..183976878,-p@chr1:183976861..183976878
-
Hg19::chr1:183976888..183976895,-p@chr1:183976888..183976895
-
Hg19::chr1:184005350..184005356,-p@chr1:184005350..184005356
-
Hg19::chr1:187929716..187929735,+p@chr1:187929716..187929735
+
Hg19::chr1:188011911..188011936,+p@chr1:188011911..188011936
+
Hg19::chr1:205905031..205905037,-p4@SLC26A9
Hg19::chr1:233843247..233843266,-p@chr1:233843247..233843266
-
Hg19::chr1:233843288..233843295,-p@chr1:233843288..233843295
-
Hg19::chr1:53890334..53890349,+p@chr1:53890334..53890349
+
Hg19::chr1:53919202..53919204,-p@chr1:53919202..53919204
-
Hg19::chr20:25176450..25176471,+p2@ENTPD6
Hg19::chr21:25744883..25744889,-p@chr21:25744883..25744889
-
Hg19::chr2:168920401..168920426,-p@chr2:168920401..168920426
-
Hg19::chr2:174136708..174136746,-p2@MLK7-AS1
Hg19::chr2:220034719..220034742,-p1@SLC23A3
Hg19::chr2:220034745..220034768,-p2@SLC23A3
Hg19::chr2:231965004..231965009,-p@chr2:231965004..231965009
-
Hg19::chr2:242312343..242312376,+p4@FARP2
Hg19::chr2:27528919..27528940,+p@chr2:27528919..27528940
+
Hg19::chr2:27529044..27529063,+p@chr2:27529044..27529063
+
Hg19::chr2:27529068..27529081,+p@chr2:27529068..27529081
+
Hg19::chr2:27529092..27529098,+p@chr2:27529092..27529098
+
Hg19::chr2:99902552..99902557,+p@chr2:99902552..99902557
+
Hg19::chr3:14058640..14058664,+p9@TPRXL
Hg19::chr3:14058772..14058785,+p7@TPRXL
Hg19::chr3:14058794..14058815,+p1@TPRXL
Hg19::chr3:14061155..14061180,+p8@TPRXL
Hg19::chr3:142285096..142285107,-p@chr3:142285096..142285107
-
Hg19::chr3:149193579..149193585,+p9@TM4SF4
Hg19::chr3:168991187..168991198,-p@chr3:168991187..168991198
-
Hg19::chr3:168991209..168991221,-p@chr3:168991209..168991221
-
Hg19::chr3:168991629..168991647,-p@chr3:168991629..168991647
-
Hg19::chr3:169101687..169101694,-p@chr3:169101687..169101694
-
Hg19::chr3:169101737..169101746,-p@chr3:169101737..169101746
-
Hg19::chr3:169101774..169101782,-p@chr3:169101774..169101782
-
Hg19::chr3:42226097..42226118,+p@chr3:42226097..42226118
+
Hg19::chr3:94366924..94366944,+p@chr3:94366924..94366944
+
Hg19::chr4:22270286..22270327,-p@chr4:22270286..22270327
-
Hg19::chr4:77637382..77637399,+p13@SHROOM3
Hg19::chr4:77637400..77637431,+p7@SHROOM3
Hg19::chr5:114750892..114750903,-p@chr5:114750892..114750903
-
Hg19::chr5:114750907..114750924,-p@chr5:114750907..114750924
-
Hg19::chr5:135880548..135880583,-p@chr5:135880548..135880583
-
Hg19::chr5:164891824..164891866,-p@chr5:164891824..164891866
-
Hg19::chr6:106905153..106905161,-p@chr6:106905153..106905161
-
Hg19::chr6:24193738..24193759,-p@chr6:24193738..24193759
-
Hg19::chr6:34208414..34208429,+p16@HMGA1
Hg19::chr7:116451016..116451023,+p8@CAPZA2
Hg19::chr7:117120106..117120117,+p5@CFTR
Hg19::chr7:117355858..117355864,-p@chr7:117355858..117355864
-
Hg19::chr7:117355869..117355891,-p@chr7:117355869..117355891
-
Hg19::chr7:117355907..117355916,-p@chr7:117355907..117355916
-
Hg19::chr7:117355930..117355937,-p@chr7:117355930..117355937
-
Hg19::chr7:117355942..117355945,-p@chr7:117355942..117355945
-
Hg19::chr7:117356954..117356963,-p@chr7:117356954..117356963
-
Hg19::chr7:960422..960430,-p20@ADAP1
Hg19::chr7:960534..960548,-p16@ADAP1
Hg19::chr8:17918981..17918993,-p14@ASAH1
Hg19::chr8:66639520..66639548,-p@chr8:66639520..66639548
-
Hg19::chr9:139312981..139312986,+p4@PMPCA
Hg19::chr9:139313013..139313034,+p3@PMPCA
Hg19::chr9:14300257..14300268,-p@chr9:14300257..14300268
-
Hg19::chr9:3898759..3898766,-p@chr9:3898759..3898766
-
Hg19::chr9:3898804..3898817,-p@chr9:3898804..3898817
-
Hg19::chr9:3898831..3898843,-p@chr9:3898831..3898843
-
Hg19::chr9:3899086..3899097,-p@chr9:3899086..3899097
-
Hg19::chr9:3900888..3900935,-p@chr9:3900888..3900935
-
Hg19::chr9:74355313..74355333,-p@chr9:74355313..74355333
-
Hg19::chrX:132849095..132849103,+p@chrX:132849095..132849103
+
Hg19::chrX:69698896..69698934,+p7@DLG3
Hg19::chrX:76923993..76924035,-p@chrX:76923993..76924035
-
Hg19::chrX:96374877..96374886,+p@chrX:96374877..96374886
+
Hg19::chrX:96374896..96374901,+p@chrX:96374896..96374901
+


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:0005912adherens junction0.00215716088844199
GO:0001936regulation of endothelial cell proliferation0.00898727966365281
GO:0001935endothelial cell proliferation0.00898727966365281
GO:0042127regulation of cell proliferation0.0194174866352181
GO:0030324lung development0.021744029977528
GO:0030323respiratory tube development0.021744029977528
GO:0008285negative regulation of cell proliferation0.021744029977528
GO:0008092cytoskeletal protein binding0.0245014610963039
GO:0005515protein binding0.0245014610963039
GO:0005224ATP-binding and phosphorylation-dependent chloride channel activity0.0245014610963039
GO:0005260channel-conductance-controlling ATPase activity0.0245014610963039
GO:0005624membrane fraction0.0255493356009633
GO:0016324apical plasma membrane0.0255493356009633
GO:0006820anion transport0.0255493356009633
GO:0008283cell proliferation0.0255493356009633
GO:0042975peroxisome proliferator activated receptor binding0.0255493356009633
GO:0043482cellular pigment accumulation0.0255493356009633
GO:0004240mitochondrial processing peptidase activity0.0255493356009633
GO:0043476pigment accumulation0.0255493356009633
GO:0006345loss of chromatin silencing0.0255493356009633
GO:0003680AT DNA binding0.0255493356009633
GO:0045177apical part of cell0.0255493356009633
GO:0051128regulation of cellular component organization and biogenesis0.0310797031657759
GO:0016020membrane0.0310797031657759
GO:0016322neuron remodeling0.0310797031657759
GO:0033059cellular pigmentation0.0310797031657759
GO:0000267cell fraction0.0332688085403726
GO:0030054cell junction0.0347455676759035
GO:0035295tube development0.0347455676759035
GO:0003891delta DNA polymerase activity0.0347455676759035
GO:0046965retinoid X receptor binding0.0347455676759035
GO:0017110nucleoside-diphosphatase activity0.0384569858713336
GO:0005916fascia adherens0.0384569858713336
GO:0006337nucleosome disassembly0.0384569858713336
GO:0031498chromatin disassembly0.0384569858713336
GO:0001938positive regulation of endothelial cell proliferation0.042492581409193
GO:0015355secondary active monocarboxylate transmembrane transporter activity0.042492581409193
GO:0009898internal side of plasma membrane0.042492581409193
GO:0045815positive regulation of gene expression, epigenetic0.0459337426993214
GO:0031116positive regulation of microtubule polymerization0.0459337426993214
GO:0050998nitric-oxide synthase binding0.0459337426993214
GO:0048523negative regulation of cellular process0.04677588402999
GO:0030321transepithelial chloride transport0.04677588402999
GO:0031112positive regulation of microtubule polymerization or depolymerization0.04677588402999
GO:0031113regulation of microtubule polymerization0.04677588402999
GO:0045176apical protein localization0.04677588402999
GO:0048519negative regulation of biological process0.0493865270640579
GO:0016601Rac protein signal transduction0.0493865270640579
GO:0042974retinoic acid receptor binding0.0493865270640579



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><br><br>disease_data<br>

Disease
Ontology termp-valuen
signet ring cell adenocarcinoma1.55e-982
adenocarcinoma2.15e-0925


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)
MA0003.11.00011e-09
MA0004.10.131251
MA0006.10.00114763
MA0007.10.0536734
MA0009.12.14307
MA0014.12.44664e-12
MA0017.12.91447
MA0019.10.43884
MA0024.10.110761
MA0025.10.100524
MA0027.12.91751
MA0028.10.0313049
MA0029.10.0301716
MA0030.10.517659
MA0031.10.197228
MA0038.10.190507
MA0040.10.881057
MA0041.10.576873
MA0042.10.30823
MA0043.10.751385
MA0046.16.13074
MA0048.10.245241
MA0050.10.114292
MA0051.10.0109257
MA0052.10.30919
MA0055.10.20156
MA0056.10
MA0057.10.00102546
MA0058.10.036283
MA0059.10.295463
MA0060.10.16622
MA0061.10.00291331
MA0063.10
MA0066.10.0972683
MA0067.10.195646
MA0068.10.235298
MA0069.10.403642
MA0070.11.05952
MA0071.10.0252082
MA0072.10.0432888
MA0073.14.82164e-17
MA0074.10.182831
MA0076.10.0896771
MA0077.11.4471
MA0078.10.370159
MA0081.10.0356
MA0083.10.19952
MA0084.10.319902
MA0087.11.03577
MA0088.10.0413162
MA0089.10
MA0090.10.559696
MA0091.10.354596
MA0092.10.528172
MA0093.10.0837735
MA0095.10
MA0098.10
MA0100.10.110047
MA0101.10.216469
MA0103.10.955132
MA0105.10.00323492
MA0106.10.13906
MA0107.10.391142
MA0108.20.193702
MA0109.10
MA0111.10.128613
MA0113.10.292254
MA0114.14.75489
MA0115.10.152495
MA0116.10.309447
MA0117.10.22792
MA0119.11.49806
MA0122.10.253828
MA0124.10.131179
MA0125.10.64058
MA0130.10
MA0131.10.0388264
MA0132.10
MA0133.10
MA0135.10.830313
MA0136.11.30709
MA0139.10.318463
MA0140.10.132083
MA0141.10.193336
MA0142.10.324254
MA0143.10.474029
MA0144.10.621441
MA0145.10.164087
MA0146.18.57936e-05
MA0147.10.0708023
MA0148.10.603512
MA0149.10.216301
MA0062.20.00988425
MA0035.20.762631
MA0039.20.0231949
MA0138.20.0975325
MA0002.20.775442
MA0137.20.0165302
MA0104.20.00808322
MA0047.20.59766
MA0112.20.011611
MA0065.23.02684
MA0150.12.97693
MA0151.10
MA0152.11.05321
MA0153.14.11505
MA0154.10.881242
MA0155.10.248963
MA0156.11.51484
MA0157.10.0489786
MA0158.10
MA0159.10.0229981
MA0160.10.107053
MA0161.10
MA0162.14.47335e-05
MA0163.10.0576514
MA0164.10.509169
MA0080.22.04708
MA0018.20.140634
MA0099.21.34576
MA0079.20
MA0102.20.34724
MA0258.10.546455
MA0259.10.0502894
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
PRDM1#63954.846726315347820.003962287800519370.0190182166275308



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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