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{{Coexpression_clusters
{
|coexpression_dpi_cluster_scores_median=0,0

Latest revision as of 10:28, 17 September 2013


Full id: C87_retinoblastoma_left_nonsmall_heart_small_diaphragm_bronchogenic



Phase1 CAGE Peaks

Hg19::chr10:15074190..15074195,+p6@OLAH
Hg19::chr10:69991865..69991870,-p1@ATOH7
Hg19::chr10:83204209..83204218,+p@chr10:83204209..83204218
+
Hg19::chr11:103301940..103301943,-p@chr11:103301940..103301943
-
Hg19::chr11:103317524..103317527,-p@chr11:103317524..103317527
-
Hg19::chr11:106336711..106336713,+p@chr11:106336711..106336713
+
Hg19::chr11:114798961..114798964,-p@chr11:114798961..114798964
-
Hg19::chr12:13248562..13248595,-p4@GSG1
Hg19::chr12:41078936..41078944,-p@chr12:41078936..41078944
-
Hg19::chr12:41079029..41079035,-p@chr12:41079029..41079035
-
Hg19::chr12:65980591..65980599,-p@chr12:65980591..65980599
-
Hg19::chr12:73368930..73368946,-p@chr12:73368930..73368946
-
Hg19::chr13:25755464..25755475,+p3@ENST00000457628
Hg19::chr13:25755497..25755513,+p1@ENST00000457628
Hg19::chr13:71380974..71381004,+p@chr13:71380974..71381004
+
Hg19::chr14:57197262..57197273,-p1@ENST00000556696
Hg19::chr14:57272369..57272391,-p2@OTX2
Hg19::chr14:60636500..60636512,-p8@DHRS7
Hg19::chr14:60636590..60636597,-p11@DHRS7
Hg19::chr14:60636598..60636610,-p6@DHRS7
Hg19::chr14:91278210..91278220,+p@chr14:91278210..91278220
+
Hg19::chr15:46559400..46559404,+p@chr15:46559400..46559404
+
Hg19::chr15:86003933..86003941,+p@chr15:86003933..86003941
+
Hg19::chr16:30042116..30042186,-p2@FAM57B
Hg19::chr17:26301257..26301266,-p1@BC034720
Hg19::chr17:56769371..56769381,-p5@TEX14
Hg19::chr17:70940047..70940062,-p@chr17:70940047..70940062
-
Hg19::chr18:39738379..39738384,+p@chr18:39738379..39738384
+
Hg19::chr18:39738733..39738779,+p@chr18:39738733..39738779
+
Hg19::chr18:39739137..39739138,+p@chr18:39739137..39739138
+
Hg19::chr18:39739175..39739186,+p@chr18:39739175..39739186
+
Hg19::chr18:39739223..39739238,+p@chr18:39739223..39739238
+
Hg19::chr18:39749184..39749185,+p@chr18:39749184..39749185
+
Hg19::chr18:39766545..39766555,+p3@uc002las.1
p3@uc002lat.2
p3@uc002lau.2
Hg19::chr18:39766598..39766611,+p2@uc002las.1
p2@uc002lat.2
p2@uc002lau.2
Hg19::chr18:39766626..39766644,+p1@uc002las.1
p1@uc002lat.2
p1@uc002lau.2
Hg19::chr18:39772023..39772030,+p@chr18:39772023..39772030
+
Hg19::chr18:39773600..39773605,+p@chr18:39773600..39773605
+
Hg19::chr18:39775826..39775830,+p@chr18:39775826..39775830
+
Hg19::chr18:39777954..39777964,+p@chr18:39777954..39777964
+
Hg19::chr18:39780587..39780589,+p@chr18:39780587..39780589
+
Hg19::chr18:39780625..39780630,+p@chr18:39780625..39780630
+
Hg19::chr18:39804201..39804205,+p@chr18:39804201..39804205
+
Hg19::chr18:39810777..39810778,+p@chr18:39810777..39810778
+
Hg19::chr18:39813889..39813893,+p@chr18:39813889..39813893
+
Hg19::chr18:39814220..39814225,+p@chr18:39814220..39814225
+
Hg19::chr18:39820439..39820461,+p@chr18:39820439..39820461
+
Hg19::chr18:39821895..39821899,+p@chr18:39821895..39821899
+
Hg19::chr18:39821929..39821932,+p@chr18:39821929..39821932
+
Hg19::chr18:39829747..39829750,+p@chr18:39829747..39829750
+
Hg19::chr18:39842923..39842928,+p@chr18:39842923..39842928
+
Hg19::chr18:39854023..39854028,+p@chr18:39854023..39854028
+
Hg19::chr18:39859562..39859566,+p@chr18:39859562..39859566
+
Hg19::chr18:39865511..39865514,+p@chr18:39865511..39865514
+
Hg19::chr18:39867441..39867445,+p@chr18:39867441..39867445
+
Hg19::chr18:39868070..39868079,+p@chr18:39868070..39868079
+
Hg19::chr18:39868291..39868330,+p@chr18:39868291..39868330
+
Hg19::chr18:39868618..39868622,+p@chr18:39868618..39868622
+
Hg19::chr18:39871319..39871320,+p@chr18:39871319..39871320
+
Hg19::chr18:39874020..39874024,+p@chr18:39874020..39874024
+
Hg19::chr18:39875774..39875777,+p@chr18:39875774..39875777
+
Hg19::chr18:39881202..39881211,+p@chr18:39881202..39881211
+
Hg19::chr18:39881292..39881297,+p@chr18:39881292..39881297
+
Hg19::chr18:39891688..39891725,+p@chr18:39891688..39891725
+
Hg19::chr18:39893995..39893996,+p@chr18:39893995..39893996
+
Hg19::chr18:39894144..39894153,+p@chr18:39894144..39894153
+
Hg19::chr18:39896465..39896470,+p@chr18:39896465..39896470
+
Hg19::chr18:39897463..39897468,+p@chr18:39897463..39897468
+
Hg19::chr18:39897476..39897487,+p@chr18:39897476..39897487
+
Hg19::chr18:39897509..39897518,+p@chr18:39897509..39897518
+
Hg19::chr18:39897864..39897888,+p@chr18:39897864..39897888
+
Hg19::chr18:39898010..39898025,+p@chr18:39898010..39898025
+
Hg19::chr18:39898508..39898535,+p@chr18:39898508..39898535
+
Hg19::chr18:39913256..39913260,+p@chr18:39913256..39913260
+
Hg19::chr18:39914963..39914970,+p@chr18:39914963..39914970
+
Hg19::chr18:39920431..39920435,+p@chr18:39920431..39920435
+
Hg19::chr18:39930705..39930710,+p@chr18:39930705..39930710
+
Hg19::chr18:39937629..39937636,+p@chr18:39937629..39937636
+
Hg19::chr18:39972061..39972066,+p@chr18:39972061..39972066
+
Hg19::chr18:39972522..39972523,+p@chr18:39972522..39972523
+
Hg19::chr18:40009800..40009804,+p@chr18:40009800..40009804
+
Hg19::chr18:40036211..40036214,+p@chr18:40036211..40036214
+
Hg19::chr18:40042666..40042675,+p@chr18:40042666..40042675
+
Hg19::chr18:40047499..40047513,+p@chr18:40047499..40047513
+
Hg19::chr18:40053270..40053272,+p@chr18:40053270..40053272
+
Hg19::chr18:40059734..40059738,+p@chr18:40059734..40059738
+
Hg19::chr18:40078407..40078413,+p@chr18:40078407..40078413
+
Hg19::chr18:40082462..40082503,+p@chr18:40082462..40082503
+
Hg19::chr18:40126571..40126572,+p@chr18:40126571..40126572
+
Hg19::chr18:40190226..40190230,+p@chr18:40190226..40190230
+
Hg19::chr18:40200823..40200829,+p@chr18:40200823..40200829
+
Hg19::chr18:40215689..40215694,+p@chr18:40215689..40215694
+
Hg19::chr18:40223091..40223095,+p@chr18:40223091..40223095
+
Hg19::chr18:40247450..40247453,+p@chr18:40247450..40247453
+
Hg19::chr18:40264537..40264544,+p@chr18:40264537..40264544
+
Hg19::chr18:40302030..40302033,+p@chr18:40302030..40302033
+
Hg19::chr18:43662040..43662046,-p@chr18:43662040..43662046
-
Hg19::chr18:43665270..43665273,-p@chr18:43665270..43665273
-
Hg19::chr18:43673335..43673337,-p@chr18:43673335..43673337
-
Hg19::chr18:43678241..43678268,-p1@ATP5A1
Hg19::chr18:43681843..43681845,-p@chr18:43681843..43681845
-
Hg19::chr18:43683574..43683577,-p@chr18:43683574..43683577
-
Hg19::chr18:43684186..43684198,-p5@ATP5A1
Hg19::chr18:43684202..43684207,-p16@ATP5A1
Hg19::chr18:43684211..43684228,-p12@ATP5A1
Hg19::chr18:43684230..43684257,-p6@ATP5A1
Hg19::chr18:43684310..43684373,+p1@HAUS1
Hg19::chr18:43688255..43688259,+p@chr18:43688255..43688259
+
Hg19::chr18:43690139..43690142,+p@chr18:43690139..43690142
+
Hg19::chr18:43753974..43754019,+p2@C18orf25
Hg19::chr18:43754021..43754071,+p1@C18orf25
Hg19::chr18:66861303..66861304,-p@chr18:66861303..66861304
-
Hg19::chr18:66884630..66884649,-p@chr18:66884630..66884649
-
Hg19::chr18:73968454..73968457,+p@chr18:73968454..73968457
+
Hg19::chr18:74073027..74073036,-p14@ZNF516
Hg19::chr18:74101235..74101236,-p1@AK095033
Hg19::chr18:74106879..74106890,-p@chr18:74106879..74106890
-
Hg19::chr18:74107127..74107144,-p@chr18:74107127..74107144
-
Hg19::chr18:74192112..74192116,-p@chr18:74192112..74192116
-
Hg19::chr18:74201538..74201543,-p@chr18:74201538..74201543
-
Hg19::chr18:74204854..74204881,-p@chr18:74204854..74204881
-
Hg19::chr18:74204885..74204892,-p@chr18:74204885..74204892
-
Hg19::chr18:74204894..74204938,-p@chr18:74204894..74204938
-
Hg19::chr18:74207247..74207249,-p12@ZNF516
Hg19::chr18:74370674..74370676,-p@chr18:74370674..74370676
-
Hg19::chr18:74413056..74413061,-p1@BC070490
Hg19::chr19:33615988..33616009,+p@chr19:33615988..33616009
+
Hg19::chr19:36346734..36346751,+p2@KIRREL2
Hg19::chr19:3772263..3772274,-p2@RAX2
Hg19::chr1:166776796..166776800,-p@chr1:166776796..166776800
-
Hg19::chr1:167165019..167165028,-p1@ENST00000426709
p1@ENST00000446687
Hg19::chr1:167165038..167165047,-p2@ENST00000446687
Hg19::chr1:167189406..167189444,+p@chr1:167189406..167189444
+
Hg19::chr1:187599792..187599837,-p@chr1:187599792..187599837
-
Hg19::chr1:26759295..26759302,+p3@DHDDS
Hg19::chr1:53608270..53608288,-p3@SLC1A7
Hg19::chr1:53608289..53608315,-p1@SLC1A7
Hg19::chr1:75602129..75602140,+p6@LHX8
Hg19::chr20:34214686..34214696,-p24@CPNE1
Hg19::chr21:16031122..16031152,-p2@LOC388813
Hg19::chr21:16031159..16031171,-p3@LOC388813
Hg19::chr21:46546516..46546524,+p@chr21:46546516..46546524
+
Hg19::chr21:46546528..46546534,+p@chr21:46546528..46546534
+
Hg19::chr2:115822146..115822156,+p32@DPP10
Hg19::chr2:115822233..115822244,+p35@DPP10
Hg19::chr2:115918717..115918732,-p1@ENST00000448663
Hg19::chr2:116000264..116000269,+p@chr2:116000264..116000269
+
Hg19::chr2:116035053..116035058,+p@chr2:116035053..116035058
+
Hg19::chr2:116059064..116059067,+p@chr2:116059064..116059067
+
Hg19::chr2:116079106..116079109,+p@chr2:116079106..116079109
+
Hg19::chr2:116091821..116091826,+p@chr2:116091821..116091826
+
Hg19::chr2:16084302..16084307,+p@chr2:16084302..16084307
+
Hg19::chr2:16123704..16123712,-p@chr2:16123704..16123712
-
Hg19::chr2:165170843..165170852,-p@chr2:165170843..165170852
-
Hg19::chr2:165170873..165170919,-p@chr2:165170873..165170919
-
Hg19::chr2:176060974..176060979,+p@chr2:176060974..176060979
+
Hg19::chr2:176940257..176940288,-p@chr2:176940257..176940288
-
Hg19::chr2:179770078..179770081,-p@chr2:179770078..179770081
-
Hg19::chr2:179770087..179770101,-p@chr2:179770087..179770101
-
Hg19::chr2:179770109..179770114,-p@chr2:179770109..179770114
-
Hg19::chr2:179770118..179770134,-p@chr2:179770118..179770134
-
Hg19::chr2:179770135..179770161,-p@chr2:179770135..179770161
-
Hg19::chr2:182546955..182546958,+p@chr2:182546955..182546958
+
Hg19::chr2:202967585..202967618,+p@chr2:202967585..202967618
+
Hg19::chr2:20551987..20552001,-p8@PUM2
Hg19::chr2:48468154..48468166,-p1@ENST00000447571
Hg19::chr3:61635177..61635181,-p@chr3:61635177..61635181
-
Hg19::chr3:62717478..62717479,-p@chr3:62717478..62717479
-
Hg19::chr3:6553105..6553115,+p@chr3:6553105..6553115
+
Hg19::chr3:6693211..6693215,+p@chr3:6693211..6693215
+
Hg19::chr4:1602645..1602695,-p@chr4:1602645..1602695
-
Hg19::chr4:18196043..18196063,+p@chr4:18196043..18196063
+
Hg19::chr4:39344493..39344497,-p@chr4:39344493..39344497
-
Hg19::chr4:80748640..80748660,+p1@GDEP
Hg19::chr5:117873881..117873899,-p@chr5:117873881..117873899
-
Hg19::chr5:155105455..155105465,+p@chr5:155105455..155105465
+
Hg19::chr5:155295391..155295395,+p@chr5:155295391..155295395
+
Hg19::chr5:155753745..155753782,+p6@SGCD
Hg19::chr5:178422299..178422326,-p1@GRM6
Hg19::chr5:178422337..178422351,-p2@GRM6
Hg19::chr5:82502040..82502052,+p5@XRCC4
Hg19::chr5:82502075..82502091,+p7@XRCC4
Hg19::chr5:82502101..82502118,+p4@XRCC4
Hg19::chr5:82502142..82502143,+p9@XRCC4
Hg19::chr6:11029286..11029291,-p@chr6:11029286..11029291
-
Hg19::chr6:138819877..138819886,-p@chr6:138819877..138819886
-
Hg19::chr6:36644267..36644294,+p4@CDKN1A
Hg19::chr6:36644295..36644305,+p13@CDKN1A
Hg19::chr6:40308163..40308170,+p3@ENST00000448559
Hg19::chr6:40308174..40308191,+p1@ENST00000448559
Hg19::chr6:40308206..40308214,+p2@ENST00000448559
Hg19::chr6:40309612..40309617,-p@chr6:40309612..40309617
-
Hg19::chr6:66376847..66376851,-p@chr6:66376847..66376851
-
Hg19::chr6:73330014..73330020,+p@chr6:73330014..73330020
+
Hg19::chr7:105241301..105241307,-p4@EFCAB10
Hg19::chr7:105241312..105241326,-p3@EFCAB10
Hg19::chr7:105779479..105779483,+p@chr7:105779479..105779483
+
Hg19::chr7:121151242..121151251,-p@chr7:121151242..121151251
-
Hg19::chr7:142640966..142640992,-p2@KEL
Hg19::chr7:142641040..142641043,-p8@KEL
Hg19::chr7:148287852..148287863,+p1@C7orf33
Hg19::chr7:69788211..69788223,+p@chr7:69788211..69788223
+
Hg19::chr7:69819605..69819617,+p@chr7:69819605..69819617
+
Hg19::chr9:137599291..137599303,+p@chr9:137599291..137599303
+
Hg19::chr9:137599308..137599312,+p@chr9:137599308..137599312
+
Hg19::chr9:139111090..139111095,-p7@QSOX2
Hg19::chr9:14437789..14437828,-p@chr9:14437789..14437828
-
Hg19::chr9:382452..382464,+p15@DOCK8
Hg19::chr9:382473..382483,+p19@DOCK8
Hg19::chrX:96762137..96762139,-p@chrX:96762137..96762139
-
Hg19::chrX:96781458..96781461,-p@chrX:96781458..96781461
-
Hg19::chrX:96783831..96783832,-p@chrX:96783831..96783832
-
Hg19::chrX:96808663..96808667,-p@chrX:96808663..96808667
-
Hg19::chrX:96819487..96819507,-p3@DIAPH2-AS1
Hg19::chrX:96819517..96819540,-p1@DIAPH2-AS1


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:0009314response to radiation0.0205038717876667
GO:0009628response to abiotic stimulus0.0439641124998119



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>

Uber Anatomy
Ontology termp-valuen
retina2.19e-126
photoreceptor array2.19e-126
posterior segment of eyeball2.19e-126
Disease
Ontology termp-valuen
nervous system cancer5.14e-2311
lung small cell carcinoma8.69e-184
bronchus cancer8.99e-117
bronchogenic carcinoma8.99e-117
lung carcinoma1.12e-089


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
MA0004.10.424116
MA0006.10.000810375
MA0007.12.83596e-05
MA0009.11.60239
MA0014.10
MA0017.10.0147134
MA0019.11.2888
MA0024.10.0838383
MA0025.10.147998
MA0027.11.11917
MA0028.14.42792e-05
MA0029.10.851646
MA0030.10.554032
MA0031.10.579114
MA0038.11.21759
MA0040.10.605123
MA0041.14.08999
MA0042.11.6607
MA0043.10.86668
MA0046.10.162513
MA0048.11.71005e-06
MA0050.10.0406355
MA0051.10.109964
MA0052.11.57193
MA0055.12.69636e-05
MA0056.10
MA0057.10.00359082
MA0058.10.176971
MA0059.10.0766271
MA0060.10.000609951
MA0061.14.36779e-05
MA0063.10
MA0066.10.062739
MA0067.10.0975719
MA0068.10.0164303
MA0069.10.814361
MA0070.10.509586
MA0071.10.199685
MA0072.10.143572
MA0073.13.45772e-10
MA0074.10.0584383
MA0076.12.43707e-05
MA0077.10.279375
MA0078.10.287506
MA0081.10.243795
MA0083.11.24309
MA0084.11.06605
MA0087.12.27821
MA0088.10.00403997
MA0089.10
MA0090.10.194083
MA0091.11.58263
MA0092.10.820285
MA0093.10.508136
MA0095.10
MA0098.10
MA0100.10.220987
MA0101.10.00567987
MA0103.10.335879
MA0105.15.40814e-09
MA0106.19.52145
MA0107.10.0118859
MA0108.20.0149374
MA0109.10
MA0111.10.558895
MA0113.10.121812
MA0114.10.000220052
MA0115.10.068555
MA0116.10.00188113
MA0117.10.0190555
MA0119.10.45212
MA0122.10.46515
MA0124.10.202835
MA0125.11.7626
MA0130.10
MA0131.10.00510633
MA0132.10
MA0133.10
MA0135.12.23913
MA0136.10.125169
MA0139.11.54793e-07
MA0140.10.55814
MA0141.10.23716
MA0142.10.938167
MA0143.10.869597
MA0144.10.16883
MA0145.16.08513e-06
MA0146.11.63936e-15
MA0147.10.06167
MA0148.12.11228
MA0149.10.376353
MA0062.21.56388e-08
MA0035.21.93183
MA0039.20
MA0138.20.0158049
MA0002.20.219113
MA0137.20.243782
MA0104.20.0045909
MA0047.21.175
MA0112.23.60915e-09
MA0065.23.38821e-07
MA0150.10.252329
MA0151.10
MA0152.11.71772
MA0153.10.293004
MA0154.10.000172621
MA0155.16.41333e-05
MA0156.10.00468872
MA0157.11.6868
MA0158.10
MA0159.10.0087226
MA0160.10.232828
MA0161.10
MA0162.14.92236e-12
MA0163.10
MA0164.10.361045
MA0080.20.0337898
MA0018.20.0071694
MA0099.20.438427
MA0079.20
MA0102.20.214073
MA0258.10.0036863
MA0259.10.0114991
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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