Personal tools

Coexpression cluster:C90

From FANTOM5_SSTAR

Revision as of 13:09, 5 September 2012 by Autoedit (talk | contribs)
Jump to: navigation, search


Full id: C90_neuroectodermal_peripheral_neuroepithelioma_neuroblastoma_carcinoid_parietal_putamen



Phase1 CAGE Peaks

Hg19::chr10:118897577..118897600,-p5@VAX1
Hg19::chr10:118898078..118898093,-p3@VAX1
Hg19::chr10:118898132..118898140,-p9@VAX1
Hg19::chr10:132938202..132938217,-p@chr10:132938202..132938217
-
Hg19::chr10:50857941..50857943,+p@chr10:50857941..50857943
+
Hg19::chr10:50864356..50864359,+p@chr10:50864356..50864359
+
Hg19::chr10:50881798..50881801,+p@chr10:50881798..50881801
+
Hg19::chr10:71695706..71695736,-p@chr10:71695706..71695736
-
Hg19::chr10:71696103..71696151,-p@chr10:71696103..71696151
-
Hg19::chr10:71812074..71812078,+p5@H2AFY2
Hg19::chr10:71812102..71812136,+p3@H2AFY2
Hg19::chr11:15989432..15989436,-p17@SOX6
Hg19::chr11:16000244..16000250,-p@chr11:16000244..16000250
-
Hg19::chr11:16015978..16015981,-p@chr11:16015978..16015981
-
Hg19::chr11:16117457..16117461,-p@chr11:16117457..16117461
-
Hg19::chr11:16125602..16125625,-p@chr11:16125602..16125625
-
Hg19::chr11:16377727..16377766,-p@chr11:16377727..16377766
-
Hg19::chr11:16377955..16378017,-p@chr11:16377955..16378017
-
Hg19::chr11:16378028..16378044,-p@chr11:16378028..16378044
-
Hg19::chr11:16378048..16378071,-p@chr11:16378048..16378071
-
Hg19::chr11:16378085..16378097,-p@chr11:16378085..16378097
-
Hg19::chr11:16629597..16629610,-p25@SOX6
Hg19::chr11:16629621..16629629,-p30@SOX6
Hg19::chr11:16629630..16629643,-p20@SOX6
Hg19::chr11:16629650..16629667,-p22@SOX6
Hg19::chr11:16630036..16630039,-p@chr11:16630036..16630039
-
Hg19::chr11:16630054..16630060,-p@chr11:16630054..16630060
-
Hg19::chr11:16630068..16630078,-p@chr11:16630068..16630078
-
Hg19::chr11:16630089..16630102,-p@chr11:16630089..16630102
-
Hg19::chr11:16630144..16630146,-p@chr11:16630144..16630146
-
Hg19::chr11:16633687..16633732,-p@chr11:16633687..16633732
-
Hg19::chr11:16633751..16633768,-p@chr11:16633751..16633768
-
Hg19::chr11:83317672..83317677,-p@chr11:83317672..83317677
-
Hg19::chr11:83436107..83436115,-p46@DLG2
Hg19::chr12:114791999..114792001,-p@chr12:114791999..114792001
-
Hg19::chr12:114798682..114798690,-p@chr12:114798682..114798690
-
Hg19::chr12:114798704..114798714,-p@chr12:114798704..114798714
-
Hg19::chr12:114798729..114798733,-p@chr12:114798729..114798733
-
Hg19::chr12:114798826..114798847,-p@chr12:114798826..114798847
-
Hg19::chr12:114829979..114829984,-p@chr12:114829979..114829984
-
Hg19::chr12:114837394..114837405,-p@chr12:114837394..114837405
-
Hg19::chr12:114845810..114845824,-p1@TBX5
Hg19::chr12:114845834..114845848,-p5@TBX5
Hg19::chr12:114845861..114845868,-p12@TBX5
Hg19::chr12:114845970..114846000,+p1@LOC255480
Hg19::chr12:18242272..18242295,-p4@RERGL
Hg19::chr12:18243080..18243091,-p3@RERGL
Hg19::chr12:18243103..18243118,-p2@RERGL
Hg19::chr12:18243119..18243133,-p1@RERGL
Hg19::chr12:80707347..80707351,+p@chr12:80707347..80707351
+
Hg19::chr13:100951268..100951280,+p@chr13:100951268..100951280
+
Hg19::chr13:38558628..38558643,-p@chr13:38558628..38558643
-
Hg19::chr13:39648479..39648502,+p@chr13:39648479..39648502
+
Hg19::chr13:39650556..39650592,+p@chr13:39650556..39650592
+
Hg19::chr14:97674516..97674526,-p@chr14:97674516..97674526
-
Hg19::chr14:97682312..97682318,+p@chr14:97682312..97682318
+
Hg19::chr15:78110780..78110799,+p@chr15:78110780..78110799
+
Hg19::chr15:78111373..78111388,-p@chr15:78111373..78111388
-
Hg19::chr16:25736373..25736377,+p@chr16:25736373..25736377
+
Hg19::chr16:25741429..25741437,+p@chr16:25741429..25741437
+
Hg19::chr16:25741486..25741495,+p@chr16:25741486..25741495
+
Hg19::chr16:25766149..25766153,+p@chr16:25766149..25766153
+
Hg19::chr16:25807276..25807277,+p@chr16:25807276..25807277
+
Hg19::chr16:25842052..25842056,+p@chr16:25842052..25842056
+
Hg19::chr16:25858350..25858351,+p@chr16:25858350..25858351
+
Hg19::chr16:25883932..25883941,+p@chr16:25883932..25883941
+
Hg19::chr16:25884405..25884421,+p@chr16:25884405..25884421
+
Hg19::chr16:25884530..25884541,+p@chr16:25884530..25884541
+
Hg19::chr16:25885675..25885684,+p@chr16:25885675..25885684
+
Hg19::chr16:25894488..25894490,+p@chr16:25894488..25894490
+
Hg19::chr16:61905717..61905720,-p@chr16:61905717..61905720
-
Hg19::chr16:62070488..62070510,+p@chr16:62070488..62070510
+
Hg19::chr16:62070534..62070537,+p@chr16:62070534..62070537
+
Hg19::chr16:78738655..78738675,+p@chr16:78738655..78738675
+
Hg19::chr17:31618260..31618271,+p@chr17:31618260..31618271
+
Hg19::chr17:31624987..31624990,+p@chr17:31624987..31624990
+
Hg19::chr17:39890893..39890898,-p1@HAP1
Hg19::chr17:43972989..43973035,-p1@LOC100128977
Hg19::chr17:43973042..43973067,-p2@LOC100128977
Hg19::chr17:46799872..46799887,-p1@PRAC
Hg19::chr17:46800319..46800343,-p2@PRAC
Hg19::chr17:46882304..46882321,-p@chr17:46882304..46882321
-
Hg19::chr17:46882324..46882346,-p@chr17:46882324..46882346
-
Hg19::chr17:6946298..6946321,-p@chr17:6946298..6946321
-
Hg19::chr17:7078552..7078564,+p@chr17:7078552..7078564
+
Hg19::chr17:7080763..7080778,-p10@ASGR1
Hg19::chr17:7080802..7080850,-p2@ASGR1
Hg19::chr17:7080851..7080863,-p7@ASGR1
Hg19::chr17:7115019..7115065,-p@chr17:7115019..7115065
-
Hg19::chr18:50329052..50329058,+p@chr18:50329052..50329058
+
Hg19::chr19:15580880..15580942,-p@chr19:15580880..15580942
-
Hg19::chr19:15580961..15580969,-p@chr19:15580961..15580969
-
Hg19::chr19:15619299..15619308,+p2@CYP4F22
Hg19::chr19:49713991..49714040,+p@chr19:49713991..49714040
+
Hg19::chr19:49714044..49714055,+p@chr19:49714044..49714055
+
Hg19::chr19:49725100..49725103,+p@chr19:49725100..49725103
+
Hg19::chr19:50000746..50000765,+p1@SNORD35B
Hg19::chr19:50016671..50016675,+p22@FCGRT
Hg19::chr19:50024944..50024947,+p@chr19:50024944..50024947
+
Hg19::chr1:185717192..185717195,+p@chr1:185717192..185717195
+
Hg19::chr1:185720104..185720113,+p@chr1:185720104..185720113
+
Hg19::chr1:185846482..185846486,+p@chr1:185846482..185846486
+
Hg19::chr1:185853036..185853046,+p@chr1:185853036..185853046
+
Hg19::chr1:185866241..185866248,+p@chr1:185866241..185866248
+
Hg19::chr1:185958925..185958928,+p@chr1:185958925..185958928
+
Hg19::chr1:186095617..186095620,+p@chr1:186095617..186095620
+
Hg19::chr1:186116540..186116557,+p@chr1:186116540..186116557
+
Hg19::chr1:186156032..186156038,+p@chr1:186156032..186156038
+
Hg19::chr1:186159241..186159250,+p@chr1:186159241..186159250
+
Hg19::chr1:18957333..18957375,+p1@PAX7
Hg19::chr1:18957380..18957386,+p10@PAX7
Hg19::chr1:209757051..209757069,+p1@CAMK1G
Hg19::chr1:214161038..214161063,-p@chr1:214161038..214161063
-
Hg19::chr1:21766691..21766715,+p3@NBPF3
Hg19::chr1:230041565..230041573,-p@chr1:230041565..230041573
-
Hg19::chr1:230041588..230041591,-p@chr1:230041588..230041591
-
Hg19::chr1:236851687..236851691,+p@chr1:236851687..236851691
+
Hg19::chr1:236866756..236866760,+p@chr1:236866756..236866760
+
Hg19::chr1:236883677..236883685,+p@chr1:236883677..236883685
+
Hg19::chr1:236883935..236883939,+p@chr1:236883935..236883939
+
Hg19::chr1:236888019..236888038,+p@chr1:236888019..236888038
+
Hg19::chr1:236888159..236888162,+p@chr1:236888159..236888162
+
Hg19::chr1:236893586..236893590,+p@chr1:236893586..236893590
+
Hg19::chr1:236895237..236895246,+p@chr1:236895237..236895246
+
Hg19::chr1:236904639..236904648,+p@chr1:236904639..236904648
+
Hg19::chr1:236931738..236931742,+p@chr1:236931738..236931742
+
Hg19::chr1:247297360..247297367,+p@chr1:247297360..247297367
+
Hg19::chr1:38502134..38502142,-p@chr1:38502134..38502142
-
Hg19::chr1:60313952..60313962,+p@chr1:60313952..60313962
+
Hg19::chr1:60313967..60313974,+p@chr1:60313967..60313974
+
Hg19::chr1:86827881..86827900,-p@chr1:86827881..86827900
-
Hg19::chr1:86938045..86938051,-p@chr1:86938045..86938051
-
Hg19::chr1:86938076..86938081,-p@chr1:86938076..86938081
-
Hg19::chr1:86938084..86938088,-p@chr1:86938084..86938088
-
Hg19::chr1:86964268..86964277,+p@chr1:86964268..86964277
+
Hg19::chr1:86964280..86964295,+p@chr1:86964280..86964295
+
Hg19::chr1:86964312..86964323,+p@chr1:86964312..86964323
+
Hg19::chr20:4228155..4228166,+p@chr20:4228155..4228166
+
Hg19::chr20:4228171..4228192,+p@chr20:4228171..4228192
+
Hg19::chr20:4228201..4228214,+p@chr20:4228201..4228214
+
Hg19::chr20:4228233..4228238,+p@chr20:4228233..4228238
+
Hg19::chr20:4228244..4228251,+p@chr20:4228244..4228251
+
Hg19::chr21:41955829..41955834,-p@chr21:41955829..41955834
-
Hg19::chr21:42198965..42198972,-p@chr21:42198965..42198972
-
Hg19::chr22:39207648..39207661,-p@chr22:39207648..39207661
-
Hg19::chr2:166979731..166979732,-p@chr2:166979731..166979732
-
Hg19::chr2:183712795..183712798,-p@chr2:183712795..183712798
-
Hg19::chr2:183868223..183868260,-p@chr2:183868223..183868260
-
Hg19::chr2:218876099..218876142,-p@chr2:218876099..218876142
-
Hg19::chr2:228754609..228754626,+p@chr2:228754609..228754626
+
Hg19::chr2:242937020..242937026,+p@chr2:242937020..242937026
+
Hg19::chr3:131718082..131718086,-p@chr3:131718082..131718086
-
Hg19::chr3:131753790..131753801,-p3@CPNE4
Hg19::chr4:1562242..1562255,+p@chr4:1562242..1562255
+
Hg19::chr4:1562269..1562275,+p@chr4:1562269..1562275
+
Hg19::chr4:1562312..1562319,+p@chr4:1562312..1562319
+
Hg19::chr4:1574584..1574600,+p@chr4:1574584..1574600
+
Hg19::chr4:1574650..1574668,+p@chr4:1574650..1574668
+
Hg19::chr4:187322326..187322329,-p@chr4:187322326..187322329
-
Hg19::chr4:82634425..82634427,-p@chr4:82634425..82634427
-
Hg19::chr5:111035724..111035730,-p@chr5:111035724..111035730
-
Hg19::chr5:132531396..132531398,-p@chr5:132531396..132531398
-
Hg19::chr6:13814036..13814054,+p@chr6:13814036..13814054
+
Hg19::chr6:29944918..29944949,-p@chr6:29944918..29944949
-
Hg19::chr6:33175140..33175167,+p2@MIR219-1
Hg19::chr6:6002642..6002653,-p@chr6:6002642..6002653
-
Hg19::chr6:6007064..6007075,-p5@NRN1
Hg19::chr7:121944689..121944705,-p2@FEZF1
Hg19::chr7:121944796..121944814,-p1@FEZF1
Hg19::chr7:121944948..121944985,+p1@ENST00000437317
Hg19::chr7:121945005..121945046,+p2@ENST00000437317
Hg19::chr7:121945047..121945052,+p6@ENST00000437317
Hg19::chr7:121945161..121945169,+p4@ENST00000437317
Hg19::chr7:121945203..121945213,+p3@ENST00000437317
Hg19::chr7:123674206..123674214,-p@chr7:123674206..123674214
-
Hg19::chr7:129991457..129991472,-p@chr7:129991457..129991472
-
Hg19::chr7:19148521..19148527,-p@chr7:19148521..19148527
-
Hg19::chr8:107072791..107072808,-p2@ENST00000520433
Hg19::chr8:12808701..12808712,+p16@KIAA1456
Hg19::chr8:12808834..12808898,+p4@KIAA1456
Hg19::chr8:12809275..12809298,+p2@KIAA1456
Hg19::chr8:12809300..12809317,+p5@KIAA1456
Hg19::chr8:12810112..12810134,+p@chr8:12810112..12810134
+
Hg19::chr8:12810136..12810161,+p@chr8:12810136..12810161
+
Hg19::chr8:12866747..12866757,+p@chr8:12866747..12866757
+
Hg19::chr8:12878732..12878750,+p@chr8:12878732..12878750
+
Hg19::chr8:27080859..27080874,+p@chr8:27080859..27080874
+
Hg19::chr8:27108843..27108849,+p@chr8:27108843..27108849
+
Hg19::chr8:27118247..27118250,+p@chr8:27118247..27118250
+
Hg19::chr8:50822747..50822761,-p@chr8:50822747..50822761
-
Hg19::chr9:138048874..138048890,-p@chr9:138048874..138048890
-
Hg19::chr9:138048894..138048904,-p@chr9:138048894..138048904
-
Hg19::chr9:14780426..14780431,-p@chr9:14780426..14780431
-
Hg19::chr9:14910922..14910928,-p24@FREM1
Hg19::chr9:14910957..14910964,-p23@FREM1
Hg19::chr9:14910990..14910995,-p25@FREM1
Hg19::chr9:14993142..14993181,-p@chr9:14993142..14993181
-
Hg19::chr9:16007885..16007892,+p@chr9:16007885..16007892
+
Hg19::chr9:80264105..80264126,-p@chr9:80264105..80264126
-
Hg19::chrX:117119262..117119297,-p4@KLHL13
Hg19::chrX:19140237..19140247,-p@chrX:19140237..19140247
-
Hg19::chrX:19140694..19140760,-p2@GPR64
Hg19::chrX:19141065..19141080,-p3@GPR64
Hg19::chrX:52685427..52685450,+p12@OAT
Hg19::chrX:52686443..52686456,+p@chrX:52686443..52686456
+


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:0007275multicellular organismal development0.0325330912060701
GO:0004587ornithine-oxo-acid transaminase activity0.0325330912060701
GO:0060044negative regulation of cardiac muscle cell proliferation0.0325330912060701
GO:0060039pericardium development0.0325330912060701
GO:0032501multicellular organismal process0.0325330912060701
GO:0051890regulation of cardioblast differentiation0.0325330912060701
GO:0051891positive regulation of cardioblast differentiation0.0325330912060701
GO:0007549dosage compensation0.0325330912060701
GO:0060043regulation of cardiac muscle cell proliferation0.0325330912060701
GO:0032502developmental process0.0325330912060701
GO:0035117embryonic arm morphogenesis0.0325330912060701
GO:0035140arm morphogenesis0.0325330912060701
GO:0001740Barr body0.0325330912060701
GO:0004873asialoglycoprotein receptor activity0.0325330912060701
GO:0000805X chromosome0.0325330912060701
GO:0010002cardioblast differentiation0.038709355173715
GO:0035136forelimb morphogenesis0.038709355173715
GO:0005954calcium- and calmodulin-dependent protein kinase complex0.038709355173715
GO:0035115embryonic forelimb morphogenesis0.038709355173715
GO:0000803sex chromosome0.038709355173715
GO:0001739sex chromatin0.038709355173715
GO:0060038cardiac muscle cell proliferation0.0424007559487827
GO:0014855striated muscle cell proliferation0.0424007559487827
GO:0006591ornithine metabolic process0.0499846624744467
GO:0035051cardiac cell differentiation0.0499846624744467
GO:0019864IgG binding0.0499846624744467



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>uberon_data<br>disease_data<br>

Uber Anatomy
Ontology termp-valuen
adult organism1.73e-44115
regional part of nervous system3.07e-3394
nervous system3.07e-3394
central nervous system5.34e-3382
neural tube4.92e-3057
neural rod4.92e-3057
future spinal cord4.92e-3057
neural keel4.92e-3057
brain5.94e-2669
future brain5.94e-2669
regional part of brain1.94e-2559
anterior neural tube7.18e-2542
regional part of forebrain1.19e-2441
forebrain1.19e-2441
future forebrain1.19e-2441
neurectoderm1.90e-2490
neural plate5.73e-2286
presumptive neural plate5.73e-2286
telencephalon3.04e-2134
gray matter3.18e-2134
brain grey matter3.18e-2134
regional part of telencephalon1.22e-2033
cerebral hemisphere2.84e-2032
ectoderm3.79e-17173
presumptive ectoderm3.79e-17173
cerebral cortex4.76e-1625
pallium4.76e-1625
pre-chordal neural plate5.84e-1661
ectoderm-derived structure2.53e-15169
regional part of cerebral cortex2.77e-1522
neocortex4.63e-1420
anterior region of body2.60e-11129
craniocervical region2.60e-11129
head3.29e-11123
basal ganglion9.05e-079
nuclear complex of neuraxis9.05e-079
aggregate regional part of brain9.05e-079
collection of basal ganglia9.05e-079
cerebral subcortex9.05e-079
Disease
Ontology termp-valuen
germ cell and embryonal cancer3.08e-0722
germ cell cancer3.08e-0722


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)

{{{tfbs_overrepresentation_jaspar}}}



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
SUZ12#23512184.400410031215282.08786291113617e-071.11765409828883e-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

"{{{coexpression_dpi_cluster_scores_median}}}" is not a number.

Retrieved from "http://f5-webapp4.gsc.riken.jp/resource_browser/index.php?title=Coexpression_cluster:C90&oldid=2131942"