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{{Coexpression_clusters
{
|coexpression_dpi_cluster_scores_median=0,0,

Latest revision as of 10:35, 17 September 2013


Full id: C116_myeloma_xeroderma_tonsil_CD19_spleen_lymph_trachea



Phase1 CAGE Peaks

Hg19::chr10:22768515..22768517,+p@chr10:22768515..22768517
+
Hg19::chr10:24738575..24738612,+p5@KIAA1217
Hg19::chr10:24738624..24738634,+p41@KIAA1217
Hg19::chr10:24738638..24738650,+p30@KIAA1217
Hg19::chr10:30536816..30536831,+p@chr10:30536816..30536831
+
Hg19::chr10:54886601..54886610,+p@chr10:54886601..54886610
+
Hg19::chr11:329707..329727,+p@chr11:329707..329727
+
Hg19::chr11:40263097..40263118,-p19@LRRC4C
Hg19::chr11:63856097..63856119,+p@chr11:63856097..63856119
+
Hg19::chr12:109077960..109077962,-p@chr12:109077960..109077962
-
Hg19::chr12:109077992..109078007,-p@chr12:109077992..109078007
-
Hg19::chr12:24972758..24972767,+p@chr12:24972758..24972767
+
Hg19::chr12:24972785..24972806,+p@chr12:24972785..24972806
+
Hg19::chr12:39734783..39734808,-p13@KIF21A
Hg19::chr12:50144308..50144313,+p56@TMBIM6
Hg19::chr12:53585137..53585182,-p@chr12:53585137..53585182
-
Hg19::chr12:68862998..68863016,-p@chr12:68862998..68863016
-
Hg19::chr13:110697682..110697690,-p@chr13:110697682..110697690
-
Hg19::chr13:67922393..67922399,-p@chr13:67922393..67922399
-
Hg19::chr13:90939632..90939664,+p@chr13:90939632..90939664
+
Hg19::chr14:106326477..106326489,+p@chr14:106326477..106326489
+
Hg19::chr14:106327649..106327660,-p4@DQ431661
Hg19::chr14:106327661..106327684,-p1@DQ431661
Hg19::chr14:106327728..106327733,-p6@DQ431661
Hg19::chr14:106329578..106329585,-p@chr14:106329578..106329585
-
Hg19::chr14:95242011..95242039,-p@chr14:95242011..95242039
-
Hg19::chr15:101069325..101069330,-p7@CERS3
Hg19::chr15:101069375..101069384,-p5@CERS3
Hg19::chr15:52773284..52773310,-p@chr15:52773284..52773310
-
Hg19::chr16:79608731..79608732,-p@chr16:79608731..79608732
-
Hg19::chr16:79616145..79616150,+p@chr16:79616145..79616150
+
Hg19::chr16:79619926..79619964,-p@chr16:79619926..79619964
-
Hg19::chr16:79622153..79622168,-p@chr16:79622153..79622168
-
Hg19::chr16:79622919..79622925,+p@chr16:79622919..79622925
+
Hg19::chr16:79626038..79626040,-p@chr16:79626038..79626040
-
Hg19::chr16:79747712..79747717,+p@chr16:79747712..79747717
+
Hg19::chr16:79747740..79747756,+p@chr16:79747740..79747756
+
Hg19::chr16:79747772..79747775,+p@chr16:79747772..79747775
+
Hg19::chr16:79747801..79747810,+p@chr16:79747801..79747810
+
Hg19::chr16:79747831..79747843,+p@chr16:79747831..79747843
+
Hg19::chr16:82817605..82817639,-p@chr16:82817605..82817639
-
Hg19::chr17:32718335..32718349,-p@chr17:32718335..32718349
-
Hg19::chr17:54428183..54428231,+p@chr17:54428183..54428231
+
Hg19::chr18:74203923..74203952,+p@chr18:74203923..74203952
+
Hg19::chr19:29026154..29026177,-p@chr19:29026154..29026177
-
Hg19::chr19:29026221..29026229,-p@chr19:29026221..29026229
-
Hg19::chr19:39587779..39587782,-p@chr19:39587779..39587782
-
Hg19::chr19:49961714..49961731,+p@chr19:49961714..49961731
+
Hg19::chr1:117087319..117087347,+p@chr1:117087319..117087347
+
Hg19::chr1:12223524..12223541,+p@chr1:12223524..12223541
+
Hg19::chr1:169805602..169805613,+p@chr1:169805602..169805613
+
Hg19::chr1:198607833..198607849,+p4@PTPRC
Hg19::chr1:198607856..198607888,+p7@PTPRC
Hg19::chr1:237932758..237932788,+p@chr1:237932758..237932788
+
Hg19::chr1:85049201..85049203,+p@chr1:85049201..85049203
+
Hg19::chr1:91328490..91328494,-p@chr1:91328490..91328494
-
Hg19::chr1:98039634..98039638,-p@chr1:98039634..98039638
-
Hg19::chr21:20322533..20322550,+p@chr21:20322533..20322550
+
Hg19::chr21:34488410..34488418,-p@chr21:34488410..34488418
-
Hg19::chr22:17094724..17094734,+p@chr22:17094724..17094734
+
Hg19::chr22:17094735..17094738,+p@chr22:17094735..17094738
+
Hg19::chr22:17094751..17094772,+p@chr22:17094751..17094772
+
Hg19::chr22:23054857..23054874,+p1@IGLV3-21
Hg19::chr22:23243367..23243395,-p@chr22:23243367..23243395
-
Hg19::chr2:144992180..144992184,+p@chr2:144992180..144992184
+
Hg19::chr2:144998671..144998676,-p@chr2:144998671..144998676
-
Hg19::chr2:159842523..159842528,+p@chr2:159842523..159842528
+
Hg19::chr2:165615049..165615056,-p@chr2:165615049..165615056
-
Hg19::chr2:167992478..167992486,+p36@XIRP2
Hg19::chr2:196710966..196710988,-p@chr2:196710966..196710988
-
Hg19::chr2:234875226..234875238,+p8@TRPM8
Hg19::chr2:43768420..43768427,-p5@THADA
Hg19::chr2:45640375..45640385,-p@chr2:45640375..45640385
-
Hg19::chr2:46768787..46768818,-p5@ATP6V1E2
Hg19::chr2:86206348..86206353,-p@chr2:86206348..86206353
-
Hg19::chr2:86438444..86438455,-p@chr2:86438444..86438455
-
Hg19::chr3:103710821..103710827,+p@chr3:103710821..103710827
+
Hg19::chr3:124654200..124654240,-p@chr3:124654200..124654240
-
Hg19::chr3:130766656..130766677,+p@chr3:130766656..130766677
+
Hg19::chr3:150316485..150316531,-p@chr3:150316485..150316531
-
Hg19::chr3:15531393..15531399,-p@chr3:15531393..15531399
-
Hg19::chr3:156822906..156822926,-p@chr3:156822906..156822926
-
Hg19::chr3:179674518..179674534,+p@chr3:179674518..179674534
+
Hg19::chr3:192414271..192414317,+p@chr3:192414271..192414317
+
Hg19::chr3:42237516..42237521,-p@chr3:42237516..42237521
-
Hg19::chr3:42237526..42237535,-p@chr3:42237526..42237535
-
Hg19::chr3:45637435..45637462,-p@chr3:45637435..45637462
-
Hg19::chr3:56207902..56207938,-p3@ERC2
Hg19::chr3:56207965..56207974,-p16@ERC2
Hg19::chr4:162586046..162586050,-p3@FSTL5
Hg19::chr4:26143606..26143611,+p@chr4:26143606..26143611
+
Hg19::chr4:46093758..46093781,-p@chr4:46093758..46093781
-
Hg19::chr4:66233218..66233227,-p@chr4:66233218..66233227
-
Hg19::chr4:66305202..66305228,+p@chr4:66305202..66305228
+
Hg19::chr4:66306454..66306463,+p@chr4:66306454..66306463
+
Hg19::chr4:66308007..66308019,+p@chr4:66308007..66308019
+
Hg19::chr4:76524891..76524896,-p@chr4:76524891..76524896
-
Hg19::chr4:76525013..76525031,-p@chr4:76525013..76525031
-
Hg19::chr5:10801166..10801179,+p@chr5:10801166..10801179
+
Hg19::chr5:10801244..10801250,+p@chr5:10801244..10801250
+
Hg19::chr5:115626749..115626788,+p6@COMMD10
Hg19::chr5:155803272..155803281,-p@chr5:155803272..155803281
-
Hg19::chr5:162627023..162627034,-p@chr5:162627023..162627034
-
Hg19::chr5:166711816..166711823,+p48@ODZ2
Hg19::chr5:32586539..32586555,+p8@SUB1
Hg19::chr5:53115516..53115545,-p1@ENST00000504552
Hg19::chr5:90830457..90830471,+p@chr5:90830457..90830471
+
Hg19::chr5:90830481..90830492,+p@chr5:90830481..90830492
+
Hg19::chr6:101902366..101902383,-p@chr6:101902366..101902383
-
Hg19::chr6:106616288..106616291,+p@chr6:106616288..106616291
+
Hg19::chr6:124669719..124669754,+p@chr6:124669719..124669754
+
Hg19::chr6:3339264..3339271,-p@chr6:3339264..3339271
-
Hg19::chr6:389797..389804,-p@chr6:389797..389804
-
Hg19::chr7:12632710..12632720,-p@chr7:12632710..12632720
-
Hg19::chr7:135679523..135679530,+p@chr7:135679523..135679530
+
Hg19::chr7:81399847..81399856,-p12@HGF
Hg19::chr7:81432906..81432917,-p@chr7:81432906..81432917
-
Hg19::chr7:81432923..81432934,-p@chr7:81432923..81432934
-
Hg19::chr7:81432944..81432949,-p@chr7:81432944..81432949
-
Hg19::chr7:81432964..81432970,-p@chr7:81432964..81432970
-
Hg19::chr7:81432972..81432980,-p@chr7:81432972..81432980
-
Hg19::chr7:81501187..81501225,+p@chr7:81501187..81501225
+
Hg19::chr7:83946145..83946165,-p@chr7:83946145..83946165
-
Hg19::chr7:85402705..85402715,-p@chr7:85402705..85402715
-
Hg19::chr7:85406054..85406063,-p@chr7:85406054..85406063
-
Hg19::chr7:85406080..85406102,-p@chr7:85406080..85406102
-
Hg19::chr7:85406211..85406217,+p@chr7:85406211..85406217
+
Hg19::chr7:85411224..85411232,-p@chr7:85411224..85411232
-
Hg19::chr7:87848253..87848304,-p@chr7:87848253..87848304
-
Hg19::chr7:92398240..92398284,-p@chr7:92398240..92398284
-
Hg19::chr8:108972923..108972934,-p@chr8:108972923..108972934
-
Hg19::chr8:108972941..108972947,-p@chr8:108972941..108972947
-
Hg19::chr8:116599724..116599735,-p@chr8:116599724..116599735
-
Hg19::chr8:116599752..116599766,-p@chr8:116599752..116599766
-
Hg19::chr8:116599856..116599857,-p@chr8:116599856..116599857
-
Hg19::chr8:131054630..131054638,-p@chr8:131054630..131054638
-
Hg19::chr8:135513449..135513453,+p@chr8:135513449..135513453
+
Hg19::chr8:136769076..136769077,-p@chr8:136769076..136769077
-
Hg19::chr8:136769096..136769108,-p@chr8:136769096..136769108
-
Hg19::chr8:140614315..140614330,-p2@KCNK9
Hg19::chr8:140614358..140614378,-p1@KCNK9
Hg19::chr8:144610064..144610088,-p@chr8:144610064..144610088
-
Hg19::chr8:144610164..144610167,+p@chr8:144610164..144610167
+
Hg19::chr8:1920058..1920066,+p@chr8:1920058..1920066
+
Hg19::chr8:48947486..48947496,+p@chr8:48947486..48947496
+
Hg19::chr8:48947511..48947526,+p@chr8:48947511..48947526
+
Hg19::chr8:48947527..48947530,+p@chr8:48947527..48947530
+
Hg19::chr8:62747328..62747346,+p1@ENST00000517953
Hg19::chr8:62747349..62747356,+p2@ENST00000517953
Hg19::chr9:130691048..130691049,-p14@PIP5KL1
Hg19::chr9:130691054..130691069,-p2@PIP5KL1
Hg19::chr9:130691070..130691090,-p1@PIP5KL1
Hg19::chr9:130691101..130691110,-p11@PIP5KL1
Hg19::chr9:134552082..134552097,-p@chr9:134552082..134552097
-
Hg19::chr9:22033489..22033492,+p@chr9:22033489..22033492
+
Hg19::chr9:30925270..30925284,-p@chr9:30925270..30925284
-
Hg19::chr9:75772986..75773020,+p13@ANXA1
Hg19::chr9:98615236..98615243,+p@chr9:98615236..98615243
+
Hg19::chrX:68796176..68796181,-p@chrX:68796176..68796181
-


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><br>disease_data<br>

Cell Type
Ontology termp-valuen
bone marrow cell3.81e-2110
lymphocyte of B lineage1.01e-0924
pro-B cell1.01e-0924
Disease
Ontology termp-valuen
bone marrow cancer5.42e-1951
myeloma5.42e-1951


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
MA0004.10.00384022
MA0006.10.00697003
MA0007.10.0988388
MA0009.10.140516
MA0014.10
MA0017.10.0660424
MA0019.10.45892
MA0024.10.0740616
MA0025.10.259654
MA0027.11.24579
MA0028.18.63192e-05
MA0029.10.213742
MA0030.10.200332
MA0031.10.274268
MA0038.11.19384
MA0040.11.01926
MA0041.11.1533
MA0042.12.66736
MA0043.10.140753
MA0046.10.570067
MA0048.10.000111639
MA0050.12.3327
MA0051.10.904619
MA0052.11.86063
MA0055.10.00680183
MA0056.10
MA0057.10.000158354
MA0058.10.0298578
MA0059.10.234618
MA0060.10.1759
MA0061.11.42347e-05
MA0063.10
MA0066.10.11371
MA0067.10.158339
MA0068.10.00888351
MA0069.10.561286
MA0070.10.536119
MA0071.10.370385
MA0072.10.028585
MA0073.10
MA0074.10.107731
MA0076.10.00250377
MA0077.10.113467
MA0078.10.251076
MA0081.10.597249
MA0083.10.146221
MA0084.10.750788
MA0087.10.830521
MA0088.10.000616324
MA0089.10
MA0090.10.616879
MA0091.17.53835
MA0092.10.998687
MA0093.10.000990891
MA0095.10
MA0098.10
MA0100.10.230902
MA0101.10.00327884
MA0103.10.119815
MA0105.12.83892e-06
MA0106.10.032901
MA0107.10.000760148
MA0108.20.269334
MA0109.10
MA0111.10.031306
MA0113.10.497638
MA0114.10.00859447
MA0115.10.119774
MA0116.10.0377303
MA0117.10.385703
MA0119.10.275361
MA0122.10.750201
MA0124.10.679093
MA0125.10.518432
MA0130.10
MA0131.10.021673
MA0132.10
MA0133.10
MA0135.10.667521
MA0136.10.218073
MA0139.10.000196857
MA0140.10.23468
MA0141.10.22954
MA0142.13.95349
MA0143.10.968245
MA0144.10.0199828
MA0145.10.449656
MA0146.12.8034e-10
MA0147.19.08851e-05
MA0148.13.60632
MA0149.10.000261435
MA0062.29.99525e-06
MA0035.20.137759
MA0039.23.6982e-14
MA0138.20.058148
MA0002.20.598432
MA0137.20.132575
MA0104.24.33781e-06
MA0047.20.827142
MA0112.26.93004e-05
MA0065.27.1554e-06
MA0150.10.753515
MA0151.10
MA0152.10.148302
MA0153.11.27437
MA0154.10.00153336
MA0155.13.50985e-05
MA0156.10.137386
MA0157.10.539083
MA0158.10
MA0159.10.00615755
MA0160.10.444541
MA0161.10
MA0162.10
MA0163.18.43787e-15
MA0164.11.03114
MA0080.20.663614
MA0018.20.0834873
MA0099.20.148832
MA0079.20
MA0102.20.298956
MA0258.10.0262791
MA0259.10.00136681
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
BATF#10538213.217068161247652.60778973073894e-069.15171208631198e-05



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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