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Coexpression cluster:C121: Difference between revisions

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{{Coexpression_clusters
{
|coexpression_dpi_cluster_scores_median=0,0,

Latest revision as of 10:36, 17 September 2013


Full id: C121_NK_Natural_CD8_CD4_anaplastic_chronic_B



Phase1 CAGE Peaks

Hg19::chr10:11846830..11846860,-p@chr10:11846830..11846860
-
Hg19::chr10:4004121..4004130,+p@chr10:4004121..4004130
+
Hg19::chr11:115740755..115740767,+p@chr11:115740755..115740767
+
Hg19::chr11:14874249..14874272,-p@chr11:14874249..14874272
-
Hg19::chr11:14874276..14874285,-p@chr11:14874276..14874285
-
Hg19::chr12:10602087..10602102,-p9@KLRC1
Hg19::chr12:10605944..10605982,-p1@KLRC1
Hg19::chr12:10725588..10725591,+p@chr12:10725588..10725591
+
Hg19::chr13:24623546..24623587,-p@chr13:24623546..24623587
-
Hg19::chr13:48464500..48464519,+p@chr13:48464500..48464519
+
Hg19::chr13:49076899..49076905,-p@chr13:49076899..49076905
-
Hg19::chr13:49076925..49076940,-p@chr13:49076925..49076940
-
Hg19::chr13:49078794..49078804,-p@chr13:49078794..49078804
-
Hg19::chr13:49078833..49078841,-p@chr13:49078833..49078841
-
Hg19::chr13:49078843..49078855,-p@chr13:49078843..49078855
-
Hg19::chr13:49078858..49078865,-p@chr13:49078858..49078865
-
Hg19::chr13:49078892..49078904,-p@chr13:49078892..49078904
-
Hg19::chr13:49086184..49086191,-p@chr13:49086184..49086191
-
Hg19::chr14:22924207..22924227,+p1@TRDJ4
Hg19::chr14:22928070..22928084,+p2@uc001wea.3
p2@uc010ajt.2
p2@uc010aju.1
Hg19::chr14:22946686..22946714,+p1@TRAJ58
Hg19::chr14:22962827..22962830,+p3@uc001weo.2
Hg19::chr14:65293677..65293683,-p@chr14:65293677..65293683
-
Hg19::chr14:72906519..72906535,-p@chr14:72906519..72906535
-
Hg19::chr14:72906537..72906544,-p@chr14:72906537..72906544
-
Hg19::chr15:69972138..69972147,+p@chr15:69972138..69972147
+
Hg19::chr15:69972162..69972169,+p@chr15:69972162..69972169
+
Hg19::chr15:91989101..91989105,+p@chr15:91989101..91989105
+
Hg19::chr15:91989133..91989141,+p@chr15:91989133..91989141
+
Hg19::chr15:92006659..92006679,+p2@uc002bqw.2
Hg19::chr15:92006720..92006726,+p1@uc002bqw.2
Hg19::chr16:26606762..26606775,-p@chr16:26606762..26606775
-
Hg19::chr16:3106750..3106761,+p@chr16:3106750..3106761
+
Hg19::chr16:3106765..3106775,+p@chr16:3106765..3106775
+
Hg19::chr16:3107014..3107025,+p@chr16:3107014..3107025
+
Hg19::chr16:67022368..67022374,-p@chr16:67022368..67022374
-
Hg19::chr16:67022476..67022498,+p4@CES4A
Hg19::chr16:67022522..67022529,+p12@CES4A
Hg19::chr16:67022540..67022546,+p10@CES4A
Hg19::chr16:67022565..67022571,+p11@CES4A
Hg19::chr16:67022582..67022605,+p5@CES4A
Hg19::chr16:75735357..75735361,-p@chr16:75735357..75735361
-
Hg19::chr16:81875657..81875670,+p@chr16:81875657..81875670
+
Hg19::chr16:81875671..81875687,+p@chr16:81875671..81875687
+
Hg19::chr16:89660493..89660504,+p@chr16:89660493..89660504
+
Hg19::chr17:14101134..14101143,+p@chr17:14101134..14101143
+
Hg19::chr17:14103251..14103258,+p@chr17:14103251..14103258
+
Hg19::chr17:38673190..38673266,+p1@uc002huv.2
Hg19::chr17:43231052..43231055,+p@chr17:43231052..43231055
+
Hg19::chr17:74184524..74184569,-p@chr17:74184524..74184569
-
Hg19::chr18:43246002..43246009,+p2@X96969
Hg19::chr18:43246028..43246041,+p1@X96969
Hg19::chr18:70028288..70028294,-p@chr18:70028288..70028294
-
Hg19::chr1:189141918..189141929,+p@chr1:189141918..189141929
+
Hg19::chr1:200990231..200990238,-p@chr1:200990231..200990238
-
Hg19::chr1:237900222..237900230,+p@chr1:237900222..237900230
+
Hg19::chr20:24939621..24939641,-p@chr20:24939621..24939641
-
Hg19::chr20:24939652..24939676,-p@chr20:24939652..24939676
-
Hg19::chr20:47335925..47335955,-p@chr20:47335925..47335955
-
Hg19::chr21:39490932..39490937,+p@chr21:39490932..39490937
+
Hg19::chr21:39491017..39491031,+p@chr21:39491017..39491031
+
Hg19::chr21:43981878..43981889,-p1@ENST00000442605
Hg19::chr21:43981912..43981918,-p2@ENST00000442605
Hg19::chr21:43982002..43982026,+p@chr21:43982002..43982026
+
Hg19::chr21:43982042..43982051,+p@chr21:43982042..43982051
+
Hg19::chr21:43982135..43982142,+p@chr21:43982135..43982142
+
Hg19::chr21:47278815..47278834,+p6@PCBP3
Hg19::chr22:46041912..46041915,+p@chr22:46041912..46041915
+
Hg19::chr22:46684442..46684454,+p1@AK025188
Hg19::chr2:102878142..102878175,+p@chr2:102878142..102878175
+
Hg19::chr2:117017738..117017741,-p@chr2:117017738..117017741
-
Hg19::chr2:117204795..117204808,-p@chr2:117204795..117204808
-
Hg19::chr2:141989111..141989114,-p@chr2:141989111..141989114
-
Hg19::chr2:146687090..146687095,+p@chr2:146687090..146687095
+
Hg19::chr2:146998057..146998070,-p@chr2:146998057..146998070
-
Hg19::chr2:162761923..162761935,+p@chr2:162761923..162761935
+
Hg19::chr2:162762205..162762206,+p@chr2:162762205..162762206
+
Hg19::chr2:162762231..162762234,+p@chr2:162762231..162762234
+
Hg19::chr2:162762247..162762250,+p@chr2:162762247..162762250
+
Hg19::chr2:162762294..162762305,+p@chr2:162762294..162762305
+
Hg19::chr2:162762337..162762353,+p@chr2:162762337..162762353
+
Hg19::chr2:162762361..162762364,+p@chr2:162762361..162762364
+
Hg19::chr2:202521027..202521058,-p@chr2:202521027..202521058
-
Hg19::chr2:43370151..43370192,-p@chr2:43370151..43370192
-
Hg19::chr2:7054041..7054045,-p@chr2:7054041..7054045
-
Hg19::chr3:152204326..152204345,+p@chr3:152204326..152204345
+
Hg19::chr3:192598433..192598481,-p@chr3:192598433..192598481
-
Hg19::chr3:27750995..27750997,-p@chr3:27750995..27750997
-
Hg19::chr3:27763613..27763618,-p6@EOMES
Hg19::chr4:105805755..105805761,+p@chr4:105805755..105805761
+
Hg19::chr4:111448516..111448521,+p@chr4:111448516..111448521
+
Hg19::chr4:116209677..116209718,+p@chr4:116209677..116209718
+
Hg19::chr4:133657589..133657598,-p@chr4:133657589..133657598
-
Hg19::chr4:133657651..133657654,-p@chr4:133657651..133657654
-
Hg19::chr4:133795152..133795153,-p@chr4:133795152..133795153
-
Hg19::chr4:134222528..134222532,-p@chr4:134222528..134222532
-
Hg19::chr4:134707420..134707442,-p@chr4:134707420..134707442
-
Hg19::chr4:134707449..134707458,-p@chr4:134707449..134707458
-
Hg19::chr4:134707474..134707504,-p@chr4:134707474..134707504
-
Hg19::chr4:175842470..175842486,-p@chr4:175842470..175842486
-
Hg19::chr4:175842511..175842520,-p@chr4:175842511..175842520
-
Hg19::chr4:175842537..175842553,-p@chr4:175842537..175842553
-
Hg19::chr4:175858389..175858405,-p@chr4:175858389..175858405
-
Hg19::chr4:176123804..176123813,+p@chr4:176123804..176123813
+
Hg19::chr4:176123823..176123829,+p@chr4:176123823..176123829
+
Hg19::chr4:2428062..2428080,+p1@uc003gfa.1
Hg19::chr4:80931642..80931646,-p@chr4:80931642..80931646
-
Hg19::chr5:24272119..24272147,-p@chr5:24272119..24272147
-
Hg19::chr5:2430820..2430834,-p@chr5:2430820..2430834
-
Hg19::chr6:128263833..128263838,-p@chr6:128263833..128263838
-
Hg19::chr6:28926723..28926729,+p@chr6:28926723..28926729
+
Hg19::chr7:100271253..100271261,-p@chr7:100271253..100271261
-
Hg19::chr7:117926276..117926281,-p@chr7:117926276..117926281
-
Hg19::chr7:117926347..117926353,-p@chr7:117926347..117926353
-
Hg19::chr7:117926391..117926398,-p@chr7:117926391..117926398
-
Hg19::chr7:120778453..120778458,-p@chr7:120778453..120778458
-
Hg19::chr7:120778501..120778512,-p@chr7:120778501..120778512
-
Hg19::chr7:158620276..158620291,-p15@ESYT2
Hg19::chr7:19479791..19479798,+p@chr7:19479791..19479798
+
Hg19::chr7:19479837..19479844,+p@chr7:19479837..19479844
+
Hg19::chr7:38284829..38284854,-p1@M33125
p1@M33127
Hg19::chr7:38287827..38287832,-p@chr7:38287827..38287832
-
Hg19::chr7:38287858..38287867,-p@chr7:38287858..38287867
-
Hg19::chr8:101969009..101969012,-p@chr8:101969009..101969012
-
Hg19::chr8:114829016..114829019,+p@chr8:114829016..114829019
+
Hg19::chr8:114877856..114877881,-p@chr8:114877856..114877881
-
Hg19::chr8:114877929..114877952,-p@chr8:114877929..114877952
-
Hg19::chr8:16739475..16739490,-p@chr8:16739475..16739490
-
Hg19::chr8:50081052..50081075,-p@chr8:50081052..50081075
-
Hg19::chr8:50081104..50081124,+p2@ENST00000518222
Hg19::chr8:51970952..51970959,+p@chr8:51970952..51970959
+
Hg19::chr8:66863902..66863928,-p@chr8:66863902..66863928
-
Hg19::chr8:66863950..66863966,-p@chr8:66863950..66863966
-
Hg19::chr8:75251775..75251785,+p@chr8:75251775..75251785
+
Hg19::chr8:75251810..75251818,+p@chr8:75251810..75251818
+
Hg19::chr8:78031657..78031663,-p@chr8:78031657..78031663
-
Hg19::chr8:95229499..95229513,-p2@CDH17
Hg19::chr8:95229847..95229858,-p5@CDH17
Hg19::chr9:116857558..116857566,-p@chr9:116857558..116857566
-
Hg19::chr9:117444458..117444472,-p1@LOC100505478
Hg19::chr9:4544914..4544917,-p@chr9:4544914..4544917
-
Hg19::chr9:5842153..5842157,-p@chr9:5842153..5842157
-
Hg19::chr9:72117884..72117889,-p@chr9:72117884..72117889
-
Hg19::chr9:72117939..72117954,-p@chr9:72117939..72117954
-
Hg19::chr9:72117965..72117978,-p@chr9:72117965..72117978
-
Hg19::chr9:87797549..87797564,+p@chr9:87797549..87797564
+
Hg19::chr9:94191864..94191875,-p@chr9:94191864..94191875
-
Hg19::chrX:133321044..133321049,+p@chrX:133321044..133321049
+


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><br>


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
MA0004.10.393767
MA0006.11.56566e-05
MA0007.10.47437
MA0009.11.46451
MA0014.11.69936e-11
MA0017.10.332104
MA0019.11.04204
MA0024.10.224958
MA0025.11.01958
MA0027.11.27605
MA0028.10.00774214
MA0029.10.469463
MA0030.10.445574
MA0031.10.822261
MA0038.10.255959
MA0040.11.1314
MA0041.10.0252907
MA0042.10.0383301
MA0043.10.163583
MA0046.10.355349
MA0048.10.175769
MA0050.11.96271
MA0051.10.575288
MA0052.10.490158
MA0055.10.332754
MA0056.10
MA0057.11.67551e-05
MA0058.10.582192
MA0059.10.431428
MA0060.10.263051
MA0061.10.00504221
MA0063.10
MA0066.10.146111
MA0067.10.998559
MA0068.10.00339175
MA0069.10.628849
MA0070.10.332507
MA0071.11.11438
MA0072.14.11584
MA0073.10
MA0074.10.139067
MA0076.10.0591435
MA0077.10.314499
MA0078.10.302511
MA0081.10.213804
MA0083.10.384221
MA0084.10.294258
MA0087.10.322207
MA0088.10.00382709
MA0089.10
MA0090.10.0375022
MA0091.10.975053
MA0092.11.1864
MA0093.10.670522
MA0095.10
MA0098.10
MA0100.10.44533
MA0101.10.00606502
MA0103.10.738342
MA0105.13.6808e-05
MA0106.10.00202088
MA0107.10.0187323
MA0108.20.157826
MA0109.10
MA0111.10.00779703
MA0113.11.10881
MA0114.10.330523
MA0115.10.418163
MA0116.10.000193298
MA0117.10.0528132
MA0119.10.0155753
MA0122.10.478167
MA0124.10.366816
MA0125.10.573098
MA0130.10
MA0131.10.0286617
MA0132.10
MA0133.10
MA0135.10.189171
MA0136.10.849256
MA0139.10.0109034
MA0140.10.444032
MA0141.10.208813
MA0142.10.130157
MA0143.10.587263
MA0144.10.345016
MA0145.10.00192164
MA0146.11.87639e-05
MA0147.10.0226154
MA0148.12.02075
MA0149.10.000436774
MA0062.20.0398203
MA0035.20.441698
MA0039.21.03522e-11
MA0138.20.304946
MA0002.22.56611
MA0137.21.20645
MA0104.20.0137765
MA0047.20.95895
MA0112.20.00111574
MA0065.20.0484057
MA0150.10.0673961
MA0151.10
MA0152.10.65668
MA0153.10.541581
MA0154.10.0001657
MA0155.13.76568e-05
MA0156.13.56853
MA0157.10.623664
MA0158.10
MA0159.10.641007
MA0160.10.376906
MA0161.10
MA0162.14.71074e-14
MA0163.13.71558e-10
MA0164.10.42027
MA0080.20.671123
MA0018.20.0447538
MA0099.21.1415
MA0079.20
MA0102.20.320775
MA0258.10.0734645
MA0259.10.00687153
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

No analysis results for this cluster

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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