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Coexpression cluster:C100: Difference between revisions

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{{Coexpression_clusters
{
|coexpression_dpi_cluster_scores_median=0,0

Latest revision as of 10:31, 17 September 2013


Full id: C100_rhabdomyosarcoma_gastric_pineal_Wilms_cervical_mesodermal_endometrial



Phase1 CAGE Peaks

Hg19::chr10:127164948..127164949,+p@chr10:127164948..127164949
+
Hg19::chr10:15484275..15484286,-p@chr10:15484275..15484286
-
Hg19::chr10:15484431..15484442,-p@chr10:15484431..15484442
-
Hg19::chr10:26021734..26021737,+p@chr10:26021734..26021737
+
Hg19::chr10:29115087..29115093,-p@chr10:29115087..29115093
-
Hg19::chr10:29115210..29115211,-p@chr10:29115210..29115211
-
Hg19::chr10:29115374..29115386,-p@chr10:29115374..29115386
-
Hg19::chr10:29115387..29115397,-p@chr10:29115387..29115397
-
Hg19::chr10:29115473..29115484,-p@chr10:29115473..29115484
-
Hg19::chr10:29115553..29115564,-p@chr10:29115553..29115564
-
Hg19::chr10:29115582..29115596,-p@chr10:29115582..29115596
-
Hg19::chr10:47081891..47081936,+p@chr10:47081891..47081936
+
Hg19::chr10:52558260..52558284,+p@chr10:52558260..52558284
+
Hg19::chr10:54699580..54699590,+p@chr10:54699580..54699590
+
Hg19::chr10:54699682..54699687,+p@chr10:54699682..54699687
+
Hg19::chr10:7326214..7326248,-p@chr10:7326214..7326248
-
Hg19::chr10:73406056..73406065,+p@chr10:73406056..73406065
+
Hg19::chr10:78900371..78900394,-p@chr10:78900371..78900394
-
Hg19::chr10:97063520..97063523,-p@chr10:97063520..97063523
-
Hg19::chr10:97063551..97063560,-p@chr10:97063551..97063560
-
Hg19::chr11:12115624..12115629,+p47@MICAL2
Hg19::chr11:12115677..12115684,+p48@MICAL2
Hg19::chr11:37506770..37506779,+p@chr11:37506770..37506779
+
Hg19::chr11:555293..555305,+p@chr11:555293..555305
+
Hg19::chr11:555661..555679,+p@chr11:555661..555679
+
Hg19::chr11:557468..557509,-p@chr11:557468..557509
-
Hg19::chr11:557951..558000,+p1@ENST00000527620
p1@uc001lpy.2
Hg19::chr12:116440881..116440890,-p@chr12:116440881..116440890
-
Hg19::chr12:121078054..121078059,-p5@ENST00000544339
Hg19::chr12:121099016..121099027,+p@chr12:121099016..121099027
+
Hg19::chr12:26424754..26424761,-p1@ENST00000537525
Hg19::chr12:70351867..70351878,+p@chr12:70351867..70351878
+
Hg19::chr13:37785778..37785780,-p@chr13:37785778..37785780
-
Hg19::chr13:43687252..43687276,+p@chr13:43687252..43687276
+
Hg19::chr13:62245490..62245507,-p@chr13:62245490..62245507
-
Hg19::chr13:72444264..72444268,+p@chr13:72444264..72444268
+
Hg19::chr13:73043658..73043707,+p@chr13:73043658..73043707
+
Hg19::chr13:97762770..97762790,+p@chr13:97762770..97762790
+
Hg19::chr14:101124179..101124190,+p@chr14:101124179..101124190
+
Hg19::chr14:26755178..26755207,-p@chr14:26755178..26755207
-
Hg19::chr14:47355052..47355073,-p@chr14:47355052..47355073
-
Hg19::chr14:55916319..55916334,+p@chr14:55916319..55916334
+
Hg19::chr14:87200137..87200151,+p@chr14:87200137..87200151
+
Hg19::chr15:30165059..30165071,-p@chr15:30165059..30165071
-
Hg19::chr15:30165101..30165108,-p@chr15:30165101..30165108
-
Hg19::chr15:63889795..63889820,+p5@FBXL22
Hg19::chr15:63889822..63889832,+p6@FBXL22
Hg19::chr15:67692535..67692542,+p@chr15:67692535..67692542
+
Hg19::chr15:68125526..68125560,+p1@ENST00000560577
Hg19::chr15:99093792..99093831,+p@chr15:99093792..99093831
+
Hg19::chr16:11461647..11461671,+p@chr16:11461647..11461671
+
Hg19::chr16:69531031..69531041,+p@chr16:69531031..69531041
+
Hg19::chr16:75840422..75840442,+p@chr16:75840422..75840442
+
Hg19::chr17:70023350..70023353,-p@chr17:70023350..70023353
-
Hg19::chr17:71257414..71257417,-p@chr17:71257414..71257417
-
Hg19::chr18:24283454..24283475,-p3@LOC728606
Hg19::chr18:24283511..24283519,-p4@LOC728606
Hg19::chr18:25664943..25664973,-p@chr18:25664943..25664973
-
Hg19::chr18:25739260..25739277,-p54@CDH2
Hg19::chr18:63566669..63566685,-p@chr18:63566669..63566685
-
Hg19::chr18:6558132..6558147,+p@chr18:6558132..6558147
+
Hg19::chr18:68904448..68904456,+p@chr18:68904448..68904456
+
Hg19::chr19:1753137..1753142,+p@chr19:1753137..1753142
+
Hg19::chr19:1763746..1763749,+p@chr19:1763746..1763749
+
Hg19::chr19:43880636..43880651,-p@chr19:43880636..43880651
-
Hg19::chr19:54463760..54463771,+p@chr19:54463760..54463771
+
Hg19::chr19:54466179..54466202,+p1@CACNG8
Hg19::chr19:56169985..56170017,+p@chr19:56169985..56170017
+
Hg19::chr1:110982676..110982680,+p@chr1:110982676..110982680
+
Hg19::chr1:147727237..147727244,-p@chr1:147727237..147727244
-
Hg19::chr1:147727248..147727259,-p@chr1:147727248..147727259
-
Hg19::chr1:163175500..163175505,+p@chr1:163175500..163175505
+
Hg19::chr1:187341279..187341283,+p@chr1:187341279..187341283
+
Hg19::chr1:190678255..190678261,-p@chr1:190678255..190678261
-
Hg19::chr1:190682273..190682308,+p@chr1:190682273..190682308
+
Hg19::chr1:215259568..215259573,+p25@KCNK2
Hg19::chr1:234677747..234677751,+p@chr1:234677747..234677751
+
Hg19::chr20:10028340..10028345,+p@chr20:10028340..10028345
+
Hg19::chr20:10030576..10030604,-p@chr20:10030576..10030604
-
Hg19::chr20:10644940..10644945,-p@chr20:10644940..10644945
-
Hg19::chr20:10645342..10645345,-p@chr20:10645342..10645345
-
Hg19::chr20:24092542..24092549,-p@chr20:24092542..24092549
-
Hg19::chr20:6033220..6033224,-p10@AB527789
Hg19::chr20:6033446..6033457,-p6@AB527789
Hg19::chr20:6033657..6033666,-p11@AB527789
Hg19::chr21:17553910..17553945,+p@chr21:17553910..17553945
+
Hg19::chr2:172944910..172944923,+p@chr2:172944910..172944923
+
Hg19::chr2:172949196..172949198,+p21@DLX1
Hg19::chr2:202856838..202856850,-p@chr2:202856838..202856850
-
Hg19::chr2:202856858..202856864,-p@chr2:202856858..202856864
-
Hg19::chr2:202938005..202938019,+p2@LOC100652824
Hg19::chr2:238507633..238507638,-p@chr2:238507633..238507638
-
Hg19::chr2:242955807..242955813,+p@chr2:242955807..242955813
+
Hg19::chr2:44524032..44524049,+p@chr2:44524032..44524049
+
Hg19::chr2:98329652..98329687,+p9@ZAP70
Hg19::chr2:98329756..98329766,+p10@ZAP70
Hg19::chr2:98329858..98329869,+p7@ZAP70
Hg19::chr3:107553271..107553278,-p@chr3:107553271..107553278
-
Hg19::chr3:107553567..107553570,+p@chr3:107553567..107553570
+
Hg19::chr3:107601927..107601937,+p2@LOC285205
Hg19::chr3:107602030..107602044,+p1@LOC285205
Hg19::chr3:108189646..108189665,-p@chr3:108189646..108189665
-
Hg19::chr3:116911966..116911979,-p@chr3:116911966..116911979
-
Hg19::chr3:148924434..148924447,-p@chr3:148924434..148924447
-
Hg19::chr3:148925425..148925449,-p10@CP
Hg19::chr3:22370600..22370612,+p@chr3:22370600..22370612
+
Hg19::chr3:22370615..22370644,+p@chr3:22370615..22370644
+
Hg19::chr3:56950223..56950232,-p@chr3:56950223..56950232
-
Hg19::chr3:59842871..59842874,-p@chr3:59842871..59842874
-
Hg19::chr3:69299232..69299244,-p27@FRMD4B
Hg19::chr3:98222615..98222623,-p@chr3:98222615..98222623
-
Hg19::chr4:134455387..134455397,-p@chr4:134455387..134455397
-
Hg19::chr4:134455464..134455466,-p@chr4:134455464..134455466
-
Hg19::chr4:152546414..152546423,-p@chr4:152546414..152546423
-
Hg19::chr4:152550830..152550849,+p@chr4:152550830..152550849
+
Hg19::chr4:16728994..16729009,+p@chr4:16728994..16729009
+
Hg19::chr4:16729019..16729026,+p@chr4:16729019..16729026
+
Hg19::chr4:169995417..169995430,-p@chr4:169995417..169995430
-
Hg19::chr4:175133586..175133590,-p@chr4:175133586..175133590
-
Hg19::chr4:175135641..175135643,-p@chr4:175135641..175135643
-
Hg19::chr4:187604556..187604566,-p@chr4:187604556..187604566
-
Hg19::chr4:187812086..187812091,+p1@ENST00000507644
Hg19::chr4:187813673..187813681,+p@chr4:187813673..187813681
+
Hg19::chr4:65890078..65890091,-p@chr4:65890078..65890091
-
Hg19::chr4:65890130..65890142,-p@chr4:65890130..65890142
-
Hg19::chr4:65890174..65890177,-p@chr4:65890174..65890177
-
Hg19::chr4:71457970..71457974,+p1@AMBN
Hg19::chr4:79258891..79258912,+p@chr4:79258891..79258912
+
Hg19::chr4:80365166..80365171,-p@chr4:80365166..80365171
-
Hg19::chr4:81139161..81139177,-p@chr4:81139161..81139177
-
Hg19::chr4:81139299..81139316,+p@chr4:81139299..81139316
+
Hg19::chr4:81139386..81139412,+p@chr4:81139386..81139412
+
Hg19::chr4:90800713..90800718,+p17@MMRN1
Hg19::chr5:130341721..130341741,-p@chr5:130341721..130341741
-
Hg19::chr5:140367838..140367863,+p@chr5:140367838..140367863
+
Hg19::chr5:27727444..27727477,-p@chr5:27727444..27727477
-
Hg19::chr5:55759917..55759924,-p@chr5:55759917..55759924
-
Hg19::chr5:55759927..55759937,-p@chr5:55759927..55759937
-
Hg19::chr5:55760015..55760022,-p@chr5:55760015..55760022
-
Hg19::chr5:85119348..85119383,-p@chr5:85119348..85119383
-
Hg19::chr5:91905833..91905841,+p@chr5:91905833..91905841
+
Hg19::chr6:112668524..112668534,+p1@RFPL4B
Hg19::chr6:130760563..130760587,+p@chr6:130760563..130760587
+
Hg19::chr6:155776949..155776953,-p3@NOX3
Hg19::chr6:155776966..155776979,-p1@NOX3
Hg19::chr6:37475109..37475148,+p1@ENST00000373404
Hg19::chr6:44144302..44144307,+p5@CAPN11
Hg19::chr6:44144336..44144350,+p2@CAPN11
Hg19::chr6:44149125..44149136,+p@chr6:44149125..44149136
+
Hg19::chr6:79924920..79924970,-p@chr6:79924920..79924970
-
Hg19::chr7:115890213..115890234,+p19@TES
Hg19::chr7:115890251..115890259,+p33@TES
Hg19::chr7:115890264..115890281,+p14@TES
Hg19::chr7:115890310..115890317,+p40@TES
Hg19::chr7:115890330..115890335,+p42@TES
Hg19::chr7:130068212..130068237,-p@chr7:130068212..130068237
-
Hg19::chr7:130134563..130134573,+p@chr7:130134563..130134573
+
Hg19::chr7:130135180..130135185,+p@chr7:130135180..130135185
+
Hg19::chr7:130135190..130135198,+p@chr7:130135190..130135198
+
Hg19::chr7:135821982..135821990,+p@chr7:135821982..135821990
+
Hg19::chr7:144570766..144570771,+p@chr7:144570766..144570771
+
Hg19::chr7:150069666..150069674,-p1@ENST00000488310
Hg19::chr7:20784885..20784893,+p@chr7:20784885..20784893
+
Hg19::chr7:28964049..28964083,-p@chr7:28964049..28964083
-
Hg19::chr7:37070441..37070454,-p@chr7:37070441..37070454
-
Hg19::chr7:37070455..37070469,-p@chr7:37070455..37070469
-
Hg19::chr7:81093571..81093579,-p@chr7:81093571..81093579
-
Hg19::chr7:93472155..93472164,-p@chr7:93472155..93472164
-
Hg19::chr8:112834905..112834911,-p@chr8:112834905..112834911
-
Hg19::chr8:11536745..11536750,+p@chr8:11536745..11536750
+
Hg19::chr8:23340250..23340279,+p@chr8:23340250..23340279
+
Hg19::chr8:58658640..58658642,+p3@ENST00000518934
p3@uc003xti.1
Hg19::chr8:58658679..58658697,+p1@ENST00000518934
p1@uc003xti.1
Hg19::chr8:58658778..58658788,+p2@ENST00000518934
p2@uc003xti.1
Hg19::chr8:58660612..58660638,-p@chr8:58660612..58660638
-
Hg19::chr8:98458459..98458491,-p1@AK091342
Hg19::chr9:12636711..12636714,-p@chr9:12636711..12636714
-
Hg19::chr9:12636720..12636733,-p@chr9:12636720..12636733
-
Hg19::chr9:12636742..12636747,-p@chr9:12636742..12636747
-
Hg19::chr9:12651828..12651843,+p@chr9:12651828..12651843
+
Hg19::chr9:12685478..12685491,+p23@TYRP1
Hg19::chr9:12685502..12685507,+p43@TYRP1
Hg19::chr9:12685513..12685519,+p41@TYRP1
Hg19::chr9:14918266..14918270,-p@chr9:14918266..14918270
-
Hg19::chr9:14992508..14992514,+p@chr9:14992508..14992514
+
Hg19::chr9:75580427..75580442,-p@chr9:75580427..75580442
-
Hg19::chr9:75580478..75580479,-p@chr9:75580478..75580479
-
Hg19::chr9:75580502..75580515,-p@chr9:75580502..75580515
-
Hg19::chr9:75580541..75580558,-p@chr9:75580541..75580558
-
Hg19::chr9:9500545..9500549,+p@chr9:9500545..9500549
+


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:0043169cation binding0.0280904135246401
GO:0046872metal ion binding0.0280904135246401
GO:0043167ion binding0.0280904135246401
GO:0009629response to gravity0.0327328388084305
GO:0043368positive T cell selection0.0381708408026043
GO:0045059positive thymic T cell selection0.0381708408026043
GO:0005507copper ion binding0.0381708408026043
GO:0004322ferroxidase activity0.0381708408026043
GO:0016724oxidoreductase activity, oxidizing metal ions, oxygen as acceptor0.0381708408026043
GO:0046873metal ion transmembrane transporter activity0.0381708408026043
GO:0045582positive regulation of T cell differentiation0.0381708408026043
GO:0015271outward rectifier potassium channel activity0.0381708408026043
GO:0045061thymic T cell selection0.0381708408026043
GO:0042438melanin biosynthetic process0.0381708408026043
GO:0033162melanosome membrane0.0381708408026043
GO:0030345structural constituent of tooth enamel0.0381708408026043
GO:0006583melanin biosynthetic process from tyrosine0.0381708408026043
GO:0045009chitosome0.0381708408026043
GO:0045621positive regulation of lymphocyte differentiation0.0381708408026043
GO:0016722oxidoreductase activity, oxidizing metal ions0.0381708408026043
GO:0006582melanin metabolic process0.0381708408026043
GO:0030021extracellular matrix structural constituent conferring compression resistance0.0381708408026043
GO:0001659thermoregulation0.0381708408026043
GO:0006725aromatic compound metabolic process0.0381708408026043
GO:0030001metal ion transport0.0402243618257222
GO:0006878cellular copper ion homeostasis0.0402243618257222
GO:0045058T cell selection0.0420108187206105
GO:0033077T cell differentiation in the thymus0.0420108187206105
GO:0045580regulation of T cell differentiation0.0450591316585281
GO:0016491oxidoreductase activity0.0458313927922714
GO:0055070copper ion homeostasis0.0458313927922714
GO:0004497monooxygenase activity0.0458313927922714
GO:0042101T cell receptor complex0.0474959343205725



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
sarcoma2.29e-1120


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
MA0004.10.0966959
MA0006.10.00727316
MA0007.10.125211
MA0009.10.438462
MA0014.15.25558e-15
MA0017.10.660542
MA0019.10.604623
MA0024.10.0430904
MA0025.10.189673
MA0027.11.17088
MA0028.10.0670087
MA0029.10.485323
MA0030.10.457806
MA0031.10.509526
MA0038.11.58106
MA0040.10.292574
MA0041.12.94814
MA0042.15.16013
MA0043.10.0925299
MA0046.12.29881
MA0048.10.014425
MA0050.11.13556
MA0051.10.285695
MA0052.10.0544004
MA0055.10.0938291
MA0056.10
MA0057.10.00651287
MA0058.10.0624077
MA0059.10.309602
MA0060.10.9225
MA0061.10.160063
MA0063.10
MA0066.10.437477
MA0067.10.120593
MA0068.10.0310003
MA0069.10.993719
MA0070.10.952147
MA0071.10.612925
MA0072.10.935637
MA0073.16.08954e-08
MA0074.10.584825
MA0076.10.0479908
MA0077.10.0154472
MA0078.10.820493
MA0081.10.842613
MA0083.10.096791
MA0084.10.635923
MA0087.10.621023
MA0088.10.00524739
MA0089.10
MA0090.10.448053
MA0091.10.164257
MA0092.10.603208
MA0093.10.123166
MA0095.10
MA0098.10
MA0100.10.0644114
MA0101.10.564132
MA0103.10.710315
MA0105.10.0042084
MA0106.10.0875563
MA0107.10.48503
MA0108.21.01906
MA0109.10
MA0111.11.02434
MA0113.10.189969
MA0114.10.157356
MA0115.10.0875847
MA0116.10.00175673
MA0117.10.115848
MA0119.10.0244121
MA0122.10.574388
MA0124.10.915095
MA0125.10.393502
MA0130.10
MA0131.10.0014447
MA0132.10
MA0133.10
MA0135.10.111081
MA0136.10.0593597
MA0139.10.0017814
MA0140.10.600517
MA0141.10.406199
MA0142.11.18427
MA0143.10.466165
MA0144.10.0794277
MA0145.10.000891819
MA0146.12.49408e-07
MA0147.10.045847
MA0148.10.597469
MA0149.11.17339
MA0062.20.0143664
MA0035.21.79837
MA0039.21.08017e-08
MA0138.20.0727899
MA0002.20.182151
MA0137.20.11773
MA0104.20.0113154
MA0047.20.739049
MA0112.20.0230801
MA0065.20.00487773
MA0150.10.056009
MA0151.10
MA0152.10.464028
MA0153.10.160621
MA0154.10.0894028
MA0155.10.000234666
MA0156.10.0486264
MA0157.10.356399
MA0158.10
MA0159.10.105667
MA0160.10.249118
MA0161.10
MA0162.10
MA0163.11.67825e-10
MA0164.10.709046
MA0080.20.123362
MA0018.20.0144103
MA0099.20.633085
MA0079.20
MA0102.20.247412
MA0258.10.668859
MA0259.10.0116735
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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