Personal tools

Coexpression cluster:C101: Difference between revisions

From FANTOM5_SSTAR

Jump to: navigation, search
No edit summary
No edit summary
 
(4 intermediate revisions by the same user not shown)
Line 1: Line 1:
{{Coexpression_clusters
{
|full_id=C101_small_cerebellum_maxillary_colon_parietal_epididymis_merkel
 

Latest revision as of 10:31, 17 September 2013


Full id: C101_small_cerebellum_maxillary_colon_parietal_epididymis_merkel



Phase1 CAGE Peaks

Hg19::chr11:1671395..1671423,-p@chr11:1671395..1671423
-
Hg19::chr11:2291849..2291858,-p4@ASCL2
Hg19::chr11:2292201..2292212,-p3@ASCL2
Hg19::chr11:2292226..2292270,-p1@ASCL2
Hg19::chr11:32635079..32635088,-p@chr11:32635079..32635088
-
Hg19::chr11:32635094..32635099,-p@chr11:32635094..32635099
-
Hg19::chr11:32635116..32635125,-p@chr11:32635116..32635125
-
Hg19::chr11:32635130..32635137,-p@chr11:32635130..32635137
-
Hg19::chr11:32635146..32635151,-p@chr11:32635146..32635151
-
Hg19::chr11:33826559..33826594,+p@chr11:33826559..33826594
+
Hg19::chr11:61976154..61976157,+p2@SCGB2A1
Hg19::chr11:62009653..62009664,+p4@SCGB1D2
Hg19::chr11:62009732..62009752,+p3@SCGB1D2
Hg19::chr11:62009756..62009783,+p1@SCGB1D2
Hg19::chr11:90181744..90181756,+p@chr11:90181744..90181756
+
Hg19::chr11:95746788..95746792,+p@chr11:95746788..95746792
+
Hg19::chr12:2693428..2693469,+p@chr12:2693428..2693469
+
Hg19::chr12:31272124..31272129,-p3@uc001rjy.2
Hg19::chr13:24232177..24232184,-p@chr13:24232177..24232184
-
Hg19::chr13:24289097..24289102,-p@chr13:24289097..24289102
-
Hg19::chr13:39261206..39261220,+p1@FREM2
Hg19::chr13:39332751..39332761,+p@chr13:39332751..39332761
+
Hg19::chr15:23810119..23810126,+p3@MKRN3
Hg19::chr15:23827035..23827038,+p@chr15:23827035..23827038
+
Hg19::chr15:32270259..32270270,+p@chr15:32270259..32270270
+
Hg19::chr15:67649588..67649598,+p8@IQCH
Hg19::chr16:50420325..50420329,+p@chr16:50420325..50420329
+
Hg19::chr16:50583403..50583421,+p@chr16:50583403..50583421
+
Hg19::chr16:50586808..50586853,+p@chr16:50586808..50586853
+
Hg19::chr16:50594555..50594558,+p@chr16:50594555..50594558
+
Hg19::chr16:50609021..50609023,+p@chr16:50609021..50609023
+
Hg19::chr16:50655573..50655586,-p@chr16:50655573..50655586
-
Hg19::chr16:50659419..50659431,+p@chr16:50659419..50659431
+
Hg19::chr16:50664175..50664188,+p@chr16:50664175..50664188
+
Hg19::chr16:50664743..50664753,+p@chr16:50664743..50664753
+
Hg19::chr16:50666194..50666212,+p@chr16:50666194..50666212
+
Hg19::chr16:50666256..50666270,+p@chr16:50666256..50666270
+
Hg19::chr16:50667519..50667529,+p@chr16:50667519..50667529
+
Hg19::chr16:50667622..50667641,+p@chr16:50667622..50667641
+
Hg19::chr16:50667686..50667701,-p@chr16:50667686..50667701
-
Hg19::chr16:50680042..50680056,+p@chr16:50680042..50680056
+
Hg19::chr17:37764898..37764905,-p@chr17:37764898..37764905
-
Hg19::chr17:47946107..47946118,+p@chr17:47946107..47946118
+
Hg19::chr18:10456027..10456060,-p@chr18:10456027..10456060
-
Hg19::chr18:10456176..10456181,-p@chr18:10456176..10456181
-
Hg19::chr18:10456186..10456191,-p@chr18:10456186..10456191
-
Hg19::chr18:10456221..10456228,-p@chr18:10456221..10456228
-
Hg19::chr18:10525925..10525936,+p7@NAPG
Hg19::chr18:3459683..3459693,+p@chr18:3459683..3459693
+
Hg19::chr18:35250402..35250410,+p@chr18:35250402..35250410
+
Hg19::chr18:36955178..36955187,-p@chr18:36955178..36955187
-
Hg19::chr18:52989415..52989429,-p63@TCF4
Hg19::chr18:53165290..53165321,-p@chr18:53165290..53165321
-
Hg19::chr18:72611750..72611755,+p@chr18:72611750..72611755
+
Hg19::chr18:72611763..72611770,+p@chr18:72611763..72611770
+
Hg19::chr19:13974949..13974960,+p@chr19:13974949..13974960
+
Hg19::chr19:18060992..18060999,+p@chr19:18060992..18060999
+
Hg19::chr19:18061245..18061251,+p@chr19:18061245..18061251
+
Hg19::chr19:18061742..18061752,-p@chr19:18061742..18061752
-
Hg19::chr19:30433219..30433233,+p3@URI1
Hg19::chr19:30495196..30495205,+p@chr19:30495196..30495205
+
Hg19::chr19:30495593..30495598,+p@chr19:30495593..30495598
+
Hg19::chr19:42637515..42637525,+p@chr19:42637515..42637525
+
Hg19::chr19:50832943..50832951,+p9@NR1H2
Hg19::chr19:54385244..54385256,-p@chr19:54385244..54385256
-
Hg19::chr1:156828879..156828914,-p1@INSRR
Hg19::chr1:156830458..156830475,-p@chr1:156830458..156830475
-
Hg19::chr1:183486836..183486856,+p@chr1:183486836..183486856
+
Hg19::chr1:183486863..183486872,+p@chr1:183486863..183486872
+
Hg19::chr1:183486877..183486880,+p@chr1:183486877..183486880
+
Hg19::chr1:216798763..216798766,-p@chr1:216798763..216798766
-
Hg19::chr1:216799658..216799665,-p@chr1:216799658..216799665
-
Hg19::chr1:230889639..230889650,+p@chr1:230889639..230889650
+
Hg19::chr1:81910488..81910495,+p@chr1:81910488..81910495
+
Hg19::chr20:2397889..2397925,+p@chr20:2397889..2397925
+
Hg19::chr20:33539679..33539680,-p7@GSS
Hg19::chr20:33539681..33539688,-p5@GSS
Hg19::chr20:44664535..44664572,-p@chr20:44664535..44664572
-
Hg19::chr20:57562489..57562529,+p10@TH1L
Hg19::chr20:5903677..5903685,+p@chr20:5903677..5903685
+
Hg19::chr20:5903794..5903803,-p@chr20:5903794..5903803
-
Hg19::chr2:130067563..130067579,-p@chr2:130067563..130067579
-
Hg19::chr2:130067584..130067595,-p@chr2:130067584..130067595
-
Hg19::chr2:130067633..130067649,-p@chr2:130067633..130067649
-
Hg19::chr2:130067654..130067664,-p@chr2:130067654..130067664
-
Hg19::chr2:130076372..130076376,-p@chr2:130076372..130076376
-
Hg19::chr2:165698803..165698810,-p22@COBLL1
Hg19::chr2:166522142..166522151,+p@chr2:166522142..166522151
+
Hg19::chr2:172967017..172967029,-p8@DLX2
Hg19::chr2:172967225..172967232,-p7@DLX2
Hg19::chr2:172967242..172967265,-p2@DLX2
Hg19::chr2:172967266..172967271,-p6@DLX2
Hg19::chr2:172967276..172967296,-p3@DLX2
Hg19::chr2:172967323..172967336,-p4@DLX2
Hg19::chr2:172967353..172967365,-p5@DLX2
Hg19::chr2:175198519..175198542,-p@chr2:175198519..175198542
-
Hg19::chr2:183381027..183381046,-p@chr2:183381027..183381046
-
Hg19::chr2:183381629..183381645,-p@chr2:183381629..183381645
-
Hg19::chr2:200298219..200298241,-p@chr2:200298219..200298241
-
Hg19::chr2:37126075..37126076,-p@chr2:37126075..37126076
-
Hg19::chr2:51259507..51259525,-p22@NRXN1
Hg19::chr2:51259528..51259554,-p10@NRXN1
Hg19::chr3:65583115..65583144,-p@chr3:65583115..65583144
-
Hg19::chr3:80727046..80727051,-p@chr3:80727046..80727051
-
Hg19::chr4:107157608..107157617,-p@chr4:107157608..107157617
-
Hg19::chr4:107158685..107158699,-p@chr4:107158685..107158699
-
Hg19::chr5:2334898..2334930,-p@chr5:2334898..2334930
-
Hg19::chr5:33986219..33986229,-p@chr5:33986219..33986229
-
Hg19::chr5:33988502..33988531,-p@chr5:33988502..33988531
-
Hg19::chr6:101902072..101902081,-p@chr6:101902072..101902081
-
Hg19::chr6:102074293..102074306,+p@chr6:102074293..102074306
+
Hg19::chr6:102074319..102074330,+p@chr6:102074319..102074330
+
Hg19::chr6:102074343..102074363,+p@chr6:102074343..102074363
+
Hg19::chr6:102074381..102074390,+p@chr6:102074381..102074390
+
Hg19::chr6:102074407..102074425,+p@chr6:102074407..102074425
+
Hg19::chr6:102074434..102074437,+p@chr6:102074434..102074437
+
Hg19::chr6:120555693..120555708,+p@chr6:120555693..120555708
+
Hg19::chr6:131967608..131967633,+p@chr6:131967608..131967633
+
Hg19::chr6:43858663..43858693,+p4@LOC100132354
Hg19::chr6:43858741..43858765,+p2@LOC100132354
Hg19::chr6:43858766..43858801,+p1@LOC100132354
Hg19::chr7:130418367..130418376,+p@chr7:130418367..130418376
+
Hg19::chr7:130418395..130418402,+p@chr7:130418395..130418402
+
Hg19::chr7:157794309..157794344,-p@chr7:157794309..157794344
-
Hg19::chr7:17978865..17978889,-p@chr7:17978865..17978889
-
Hg19::chr7:17979403..17979425,+p@chr7:17979403..17979425
+
Hg19::chr7:17980054..17980065,-p3@SNX13
Hg19::chr7:18125931..18125935,+p@chr7:18125931..18125935
+
Hg19::chr7:18126240..18126298,+p15@HDAC9
Hg19::chr7:18126442..18126465,+p9@HDAC9
Hg19::chr7:18126557..18126641,+p6@HDAC9
Hg19::chr7:18127565..18127576,+p1@ENST00000455069
Hg19::chr7:18206831..18206833,+p@chr7:18206831..18206833
+
Hg19::chr7:18247180..18247182,+p@chr7:18247180..18247182
+
Hg19::chr7:18390519..18390547,+p@chr7:18390519..18390547
+
Hg19::chr7:18535224..18535233,+p41@HDAC9
Hg19::chr7:18535300..18535311,+p20@HDAC9
Hg19::chr7:18535321..18535343,+p7@HDAC9
Hg19::chr7:18575650..18575653,-p@chr7:18575650..18575653
-
Hg19::chr7:18587136..18587138,+p@chr7:18587136..18587138
+
Hg19::chr7:18624926..18624945,+p@chr7:18624926..18624945
+
Hg19::chr7:18625020..18625033,+p@chr7:18625020..18625033
+
Hg19::chr7:18668902..18668905,+p@chr7:18668902..18668905
+
Hg19::chr7:18672094..18672104,+p@chr7:18672094..18672104
+
Hg19::chr7:18687532..18687536,+p@chr7:18687532..18687536
+
Hg19::chr7:27224021..27224026,+p17@HOXA11-AS1
Hg19::chr7:27282174..27282223,-p1@ENST00000519050
Hg19::chr7:27282385..27282394,+p3@EVX1
Hg19::chr7:27903656..27903678,-p11@JAZF1
Hg19::chr7:29233305..29233342,+p@chr7:29233305..29233342
+
Hg19::chr7:29334902..29334911,+p@chr7:29334902..29334911
+
Hg19::chr7:73140837..73140841,-p@chr7:73140837..73140841
-
Hg19::chr7:75909929..75909966,+p@chr7:75909929..75909966
+
Hg19::chr7:75910322..75910332,+p@chr7:75910322..75910332
+
Hg19::chr8:108266644..108266647,-p@chr8:108266644..108266647
-
Hg19::chr8:108323457..108323466,-p@chr8:108323457..108323466
-
Hg19::chr8:108323495..108323502,-p@chr8:108323495..108323502
-
Hg19::chr8:108323562..108323573,-p@chr8:108323562..108323573
-
Hg19::chr8:108323707..108323711,-p@chr8:108323707..108323711
-
Hg19::chr8:108324027..108324036,-p@chr8:108324027..108324036
-
Hg19::chr8:108446884..108446900,-p@chr8:108446884..108446900
-
Hg19::chr8:108509590..108509613,-p6@ANGPT1
Hg19::chr8:108509895..108509902,-p16@ANGPT1
Hg19::chr8:108510224..108510248,-p3@ANGPT1
Hg19::chr8:123583818..123583821,-p@chr8:123583818..123583821
-
Hg19::chr8:20040601..20040630,-p2@SLC18A1
Hg19::chr8:20040638..20040652,-p1@SLC18A1
Hg19::chr8:20472433..20472439,-p1@ENST00000516135
Hg19::chr8:38399534..38399540,-p@chr8:38399534..38399540
-
Hg19::chr8:38411258..38411272,-p@chr8:38411258..38411272
-
Hg19::chr8:49730848..49730871,+p@chr8:49730848..49730871
+
Hg19::chr8:6698718..6698744,+p@chr8:6698718..6698744
+
Hg19::chr8:6817717..6817731,-p1@DEFA9P
Hg19::chr8:6887048..6887055,-p1@DEFA11P
Hg19::chr8:6897005..6897008,-p1@DEFA7P
Hg19::chr8:6914153..6914160,-p2@DEFA5
Hg19::chr9:73778694..73778720,-p@chr9:73778694..73778720
-
Hg19::chr9:73829940..73829948,-p@chr9:73829940..73829948
-
Hg19::chr9:73881874..73881877,-p@chr9:73881874..73881877
-
Hg19::chr9:73893947..73893951,-p@chr9:73893947..73893951
-
Hg19::chr9:73894992..73894993,-p@chr9:73894992..73894993
-
Hg19::chr9:73947041..73947056,-p@chr9:73947041..73947056
-
Hg19::chr9:73947245..73947253,-p@chr9:73947245..73947253
-
Hg19::chr9:74062623..74062652,-p@chr9:74062623..74062652
-
Hg19::chr9:74062701..74062711,-p@chr9:74062701..74062711
-
Hg19::chr9:74167593..74167609,-p@chr9:74167593..74167609
-
Hg19::chr9:74167667..74167687,-p@chr9:74167667..74167687
-
Hg19::chr9:74167724..74167739,-p@chr9:74167724..74167739
-
Hg19::chr9:74167989..74167992,-p@chr9:74167989..74167992
-
Hg19::chr9:74384373..74384388,-p@chr9:74384373..74384388
-


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:0016481negative regulation of transcription0.00569544948163178
GO:0045934negative regulation of nucleobase, nucleoside, nucleotide and nucleic acid metabolic process0.00569544948163178
GO:0031324negative regulation of cellular metabolic process0.00755964970404332
GO:0009892negative regulation of metabolic process0.00952977996252333
GO:0016564transcription repressor activity0.0151647357180119
GO:0007275multicellular organismal development0.0151647357180119
GO:0048523negative regulation of cellular process0.0157689292058636
GO:0006355regulation of transcription, DNA-dependent0.0157689292058636
GO:0004363glutathione synthase activity0.0157689292058636
GO:0048519negative regulation of biological process0.0157689292058636
GO:0006351transcription, DNA-dependent0.0157689292058636
GO:0032774RNA biosynthetic process0.0157689292058636
GO:0045449regulation of transcription0.021642745754459
GO:0019219regulation of nucleobase, nucleoside, nucleotide and nucleic acid metabolic process0.0223548243104183
GO:0006350transcription0.0241386646810479
GO:0010468regulation of gene expression0.0241386646810479
GO:0042742defense response to bacterium0.0254107438310059
GO:0031323regulation of cellular metabolic process0.0254107438310059
GO:0003700transcription factor activity0.0261464457060413
GO:0009617response to bacterium0.0261464457060413
GO:0003714transcription corepressor activity0.0261464457060413
GO:0006357regulation of transcription from RNA polymerase II promoter0.0261464457060413
GO:0008134transcription factor binding0.0261464457060413
GO:0019222regulation of metabolic process0.0261464457060413
GO:0016070RNA metabolic process0.0261464457060413
GO:0005497androgen binding0.0263168210860954
GO:0048731system development0.0263168210860954
GO:0044451nucleoplasm part0.0263168210860954
GO:0000122negative regulation of transcription from RNA polymerase II promoter0.0271229937447896
GO:0032502developmental process0.0281826313299467
GO:0008504monoamine transmembrane transporter activity0.0281826313299467
GO:0005515protein binding0.0295470862423253
GO:0015844monoamine transport0.0310627333598091
GO:0065007biological regulation0.0310627333598091
GO:0005654nucleoplasm0.0310627333598091
GO:0050794regulation of cellular process0.0350130822848958
GO:0045843negative regulation of striated muscle development0.0367532869569296
GO:0006750glutathione biosynthetic process0.0367532869569296
GO:0006952defense response0.0386664540593856
GO:0042221response to chemical stimulus0.0386664540593856
GO:0017053transcriptional repressor complex0.0425549775703636
GO:0032501multicellular organismal process0.0425615836320144
GO:0048856anatomical structure development0.0427035378600283
GO:0006366transcription from RNA polymerase II promoter0.0427035378600283
GO:0045892negative regulation of transcription, DNA-dependent0.0427035378600283
GO:0051707response to other organism0.0427035378600283
GO:0050789regulation of biological process0.0427035378600283
GO:0005667transcription factor complex0.0427035378600283
GO:0050832defense response to fungus0.0427035378600283
GO:0016202regulation of striated muscle development0.0451811701326321
GO:0045893positive regulation of transcription, DNA-dependent0.0451811701326321
GO:0031981nuclear lumen0.0451811701326321
GO:0050821protein stabilization0.0451811701326321
GO:0016566specific transcriptional repressor activity0.0451811701326321
GO:0007417central nervous system development0.0472137525682012
GO:0007399nervous system development0.0472205833852633



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
gastrointestinal system cancer1.43e-1514


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)
MA0003.17.69492e-11
MA0004.10.159109
MA0006.10.0276228
MA0007.10.00758216
MA0009.10.230395
MA0014.10.000257282
MA0017.10.407385
MA0019.10.280616
MA0024.10.00834808
MA0025.10.0508445
MA0027.11.17088
MA0028.15.20988e-05
MA0029.10.283019
MA0030.11.00467
MA0031.10.509526
MA0038.11.58106
MA0040.10.49966
MA0041.10.418658
MA0042.10.0800612
MA0043.10.230781
MA0046.11.00819
MA0048.10.00214898
MA0050.10.0439313
MA0051.10.0516032
MA0052.12.81862
MA0055.11.34265
MA0056.10
MA0057.10.169929
MA0058.10.101998
MA0059.10.680448
MA0060.10.100572
MA0061.10.120245
MA0063.10
MA0066.10.108255
MA0067.10.120593
MA0068.10.195194
MA0069.10.409295
MA0070.10.199806
MA0071.11.02283
MA0072.10.935637
MA0073.10.157071
MA0074.10.178554
MA0076.10.000105735
MA0077.11.26265
MA0078.10.146979
MA0081.10.100104
MA0083.10.0222755
MA0084.11.85487
MA0087.11.69669
MA0088.10.00218164
MA0089.10
MA0090.10.0620445
MA0091.11.03551
MA0092.10.768585
MA0093.10.123166
MA0095.10
MA0098.10
MA0100.10.88216
MA0101.10.0869499
MA0103.11.38985
MA0105.10.00256899
MA0106.10.0875563
MA0107.10.126741
MA0108.21.7051
MA0109.10
MA0111.10.515491
MA0113.10.0481672
MA0114.10.278683
MA0115.11.52825
MA0116.10.000264579
MA0117.10.115848
MA0119.12.20539
MA0122.10.133843
MA0124.10.537011
MA0125.11.07668
MA0130.10
MA0131.10.0858033
MA0132.10
MA0133.10
MA0135.11.16789
MA0136.10.0254218
MA0139.10.0821274
MA0140.10.439295
MA0141.11.64345
MA0142.10.257899
MA0143.10.190264
MA0144.10.0342575
MA0145.10.0354926
MA0146.15.51049e-05
MA0147.10.14738
MA0148.11.20881
MA0149.13.44287
MA0062.21.06191e-08
MA0035.21.0004
MA0039.24.59423e-06
MA0138.20.411
MA0002.20.0206252
MA0137.20.428733
MA0104.20.135412
MA0047.20.96816
MA0112.20.0724126
MA0065.20.117626
MA0150.10.006191
MA0151.10
MA0152.10.324961
MA0153.10.367106
MA0154.10.144725
MA0155.10.131308
MA0156.17.36716e-05
MA0157.10.356399
MA0158.10
MA0159.10.203928
MA0160.10.506519
MA0161.10
MA0162.16.87494e-05
MA0163.10.0021058
MA0164.11.51769
MA0080.20.00138785
MA0018.20.0403392
MA0099.20.0717401
MA0079.21.1942e-06
MA0102.20.247412
MA0258.10.170987
MA0259.10.495412
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

Retrieved from "http://f5-webapp4.gsc.riken.jp/resource_browser/index.php?title=Coexpression_cluster:C101&oldid=3067219"