Personal tools

Coexpression cluster:C99: Difference between revisions

From FANTOM5_SSTAR

Jump to: navigation, search
No edit summary
No edit summary
Line 6: Line 6:
|ontology_enrichment_disease=DOID:2531!1.11e-07!51;DOID:0060083!1.11e-07!51
|ontology_enrichment_disease=DOID:2531!1.11e-07!51;DOID:0060083!1.11e-07!51
|ontology_enrichment_uberon=UBERON:0002390!3.67e-16!102;UBERON:0003061!3.67e-16!102;UBERON:0002193!4.27e-14!112;UBERON:0002371!8.36e-09!80;UBERON:0001474!5.15e-08!86;UBERON:0002405!8.85e-08!115;UBERON:0007023!9.72e-08!115;UBERON:0000178!5.95e-07!15;UBERON:0000179!5.95e-07!15;UBERON:0000463!5.95e-07!15
|ontology_enrichment_uberon=UBERON:0002390!3.67e-16!102;UBERON:0003061!3.67e-16!102;UBERON:0002193!4.27e-14!112;UBERON:0002371!8.36e-09!80;UBERON:0001474!5.15e-08!86;UBERON:0002405!8.85e-08!115;UBERON:0007023!9.72e-08!115;UBERON:0000178!5.95e-07!15;UBERON:0000179!5.95e-07!15;UBERON:0000463!5.95e-07!15
|pathway_enrichment=1.30672006837127e-05;0.00827153803279015;5;433;IL-2 up reg. targets (Netpath):NetPath_14
}}
}}

Revision as of 15:06, 13 July 2012


Full id: C99_hairy_mycosis_submaxillary_salivary_cord_kidney_parotid



Phase1 CAGE Peaks

Hg19::chr10:104156195..104156217,+p@chr10:104156195..104156217
+
Hg19::chr10:104157255..104157271,+p@chr10:104157255..104157271
+
Hg19::chr10:134746611..134746651,-p@chr10:134746611..134746651
-
Hg19::chr10:135107411..135107414,+p@chr10:135107411..135107414
+
Hg19::chr10:30977801..30977807,+p@chr10:30977801..30977807
+
Hg19::chr10:30977839..30977844,+p@chr10:30977839..30977844
+
Hg19::chr10:30977872..30977875,+p@chr10:30977872..30977875
+
Hg19::chr10:4951559..4951578,+p@chr10:4951559..4951578
+
Hg19::chr10:6045414..6045424,+p@chr10:6045414..6045424
+
Hg19::chr10:92865673..92865678,+p@chr10:92865673..92865678
+
Hg19::chr11:103496891..103496898,-p@chr11:103496891..103496898
-
Hg19::chr11:103496981..103496989,-p@chr11:103496981..103496989
-
Hg19::chr11:117695233..117695244,-p11@FXYD2
Hg19::chr11:117698765..117698779,-p5@FXYD2
Hg19::chr11:117698787..117698813,-p2@FXYD2
Hg19::chr11:1862032..1862039,+p@chr11:1862032..1862039
+
Hg19::chr11:327445..327463,+p3@ENST00000531076
Hg19::chr11:44636841..44636889,+p@chr11:44636841..44636889
+
Hg19::chr11:60810625..60810635,-p@chr11:60810625..60810635
-
Hg19::chr11:60849597..60849629,-p@chr11:60849597..60849629
-
Hg19::chr11:75946917..75946931,-p@chr11:75946917..75946931
-
Hg19::chr12:108274444..108274448,+p@chr12:108274444..108274448
+
Hg19::chr12:114404090..114404099,-p2@RBM19
Hg19::chr12:124968655..124968666,-p48@NCOR2
Hg19::chr12:4745521..4745524,+p@chr12:4745521..4745524
+
Hg19::chr12:6890042..6890078,+p@chr12:6890042..6890078
+
Hg19::chr13:46275503..46275539,-p@chr13:46275503..46275539
-
Hg19::chr14:106241831..106241872,-p@chr14:106241831..106241872
-
Hg19::chr14:106241922..106241931,-p@chr14:106241922..106241931
-
Hg19::chr14:50459621..50459636,-p@chr14:50459621..50459636
-
Hg19::chr14:89744573..89744583,-p@chr14:89744573..89744583
-
Hg19::chr15:27127807..27127817,+p@chr15:27127807..27127817
+
Hg19::chr15:27127940..27127947,+p@chr15:27127940..27127947
+
Hg19::chr15:27128596..27128607,+p29@GABRA5
Hg19::chr15:29335471..29335476,+p@chr15:29335471..29335476
+
Hg19::chr15:50546894..50546913,-p@chr15:50546894..50546913
-
Hg19::chr15:57401426..57401459,+p20@TCF12
Hg19::chr15:91369648..91369659,+p@chr15:91369648..91369659
+
Hg19::chr16:24549074..24549082,+p9@RBBP6
Hg19::chr16:57931338..57931345,-p@chr16:57931338..57931345
-
Hg19::chr16:73266673..73266687,+p@chr16:73266673..73266687
+
Hg19::chr17:27216091..27216096,-p11@FLOT2
Hg19::chr17:27216182..27216204,-p3@FLOT2
Hg19::chr17:43310611..43310637,+p21@FMNL1
Hg19::chr17:71223579..71223589,-p@chr17:71223579..71223589
-
Hg19::chr17:74271980..74271992,-p@chr17:74271980..74271992
-
Hg19::chr17:74272005..74272020,-p@chr17:74272005..74272020
-
Hg19::chr17:74272029..74272036,-p@chr17:74272029..74272036
-
Hg19::chr17:74272055..74272058,-p@chr17:74272055..74272058
-
Hg19::chr17:74272157..74272179,-p@chr17:74272157..74272179
-
Hg19::chr18:21322164..21322173,+p@chr18:21322164..21322173
+
Hg19::chr18:54725248..54725259,-p@chr18:54725248..54725259
-
Hg19::chr18:55095246..55095262,+p@chr18:55095246..55095262
+
Hg19::chr18:56631378..56631384,-p@chr18:56631378..56631384
-
Hg19::chr19:14591218..14591237,-p8@GIPC1
Hg19::chr19:17464436..17464438,+p@chr19:17464436..17464438
+
Hg19::chr1:1141927..1141985,-p1@TNFRSF18
Hg19::chr1:1142067..1142076,-p4@TNFRSF18
Hg19::chr1:1142084..1142097,-p3@TNFRSF18
Hg19::chr1:1142184..1142194,-p2@TNFRSF18
Hg19::chr1:1143531..1143567,-p@chr1:1143531..1143567
-
Hg19::chr1:1149526..1149539,-p1@TNFRSF4
Hg19::chr1:1154360..1154365,-p@chr1:1154360..1154365
-
Hg19::chr1:1154830..1154841,-p@chr1:1154830..1154841
-
Hg19::chr1:1154851..1154861,-p@chr1:1154851..1154861
-
Hg19::chr1:1154868..1154878,-p@chr1:1154868..1154878
-
Hg19::chr1:1357098..1357110,+p@chr1:1357098..1357110
+
Hg19::chr1:186891908..186891916,-p@chr1:186891908..186891916
-
Hg19::chr1:206902020..206902039,+p13@MAPKAPK2
Hg19::chr1:206902047..206902068,+p9@MAPKAPK2
Hg19::chr1:206902111..206902115,+p23@MAPKAPK2
Hg19::chr1:206903285..206903294,+p@chr1:206903285..206903294
+
Hg19::chr1:206903297..206903328,+p@chr1:206903297..206903328
+
Hg19::chr1:206904457..206904467,+p27@MAPKAPK2
Hg19::chr1:206904484..206904510,+p6@MAPKAPK2
Hg19::chr1:206904759..206904775,+p22@MAPKAPK2
Hg19::chr1:26879858..26879879,+p@chr1:26879858..26879879
+
Hg19::chr1:26880684..26880704,+p2@MIR1976
Hg19::chr1:3568889..3568900,+p7@TP73
Hg19::chr1:3569072..3569093,+p1@TP73
Hg19::chr1:3598871..3598890,+p11@TP73
Hg19::chr1:3650500..3650504,+p@chr1:3650500..3650504
+
Hg19::chr1:54706790..54706840,-p@chr1:54706790..54706840
-
Hg19::chr1:59844019..59844033,+p@chr1:59844019..59844033
+
Hg19::chr1:59858033..59858039,+p@chr1:59858033..59858039
+
Hg19::chr1:66833306..66833315,+p70@PDE4B
Hg19::chr20:44842721..44842722,-p@chr20:44842721..44842722
-
Hg19::chr20:50244219..50244226,-p@chr20:50244219..50244226
-
Hg19::chr20:50244242..50244249,-p@chr20:50244242..50244249
-
Hg19::chr20:50244262..50244273,-p@chr20:50244262..50244273
-
Hg19::chr20:50244294..50244303,-p@chr20:50244294..50244303
-
Hg19::chr20:62076448..62076464,-p@chr20:62076448..62076464
-
Hg19::chr20:62076559..62076574,-p@chr20:62076559..62076574
-
Hg19::chr20:62077503..62077507,-p@chr20:62077503..62077507
-
Hg19::chr20:62077522..62077533,-p@chr20:62077522..62077533
-
Hg19::chr20:62078818..62078832,-p@chr20:62078818..62078832
-
Hg19::chr20:62078835..62078846,-p@chr20:62078835..62078846
-
Hg19::chr21:42601985..42602001,+p6@BACE2
Hg19::chr21:42602009..42602018,+p17@BACE2
Hg19::chr21:42602040..42602051,+p16@BACE2
Hg19::chr21:42602093..42602102,+p19@BACE2
Hg19::chr21:44690996..44691009,+p@chr21:44690996..44691009
+
Hg19::chr21:45228890..45228908,-p@chr21:45228890..45228908
-
Hg19::chr22:50318813..50318835,+p@chr22:50318813..50318835
+
Hg19::chr2:106407366..106407377,-p@chr2:106407366..106407377
-
Hg19::chr2:106492075..106492082,+p@chr2:106492075..106492082
+
Hg19::chr2:121749533..121749569,+p@chr2:121749533..121749569
+
Hg19::chr2:122921127..122921138,+p@chr2:122921127..122921138
+
Hg19::chr2:122921252..122921262,+p@chr2:122921252..122921262
+
Hg19::chr2:123497892..123497906,+p@chr2:123497892..123497906
+
Hg19::chr2:127841785..127841812,-p@chr2:127841785..127841812
-
Hg19::chr2:127842547..127842552,-p@chr2:127842547..127842552
-
Hg19::chr2:174146763..174146766,-p1@MLK7-AS1
Hg19::chr2:222428639..222428644,-p@chr2:222428639..222428644
-
Hg19::chr2:231454317..231454329,-p@chr2:231454317..231454329
-
Hg19::chr2:46371809..46371812,+p@chr2:46371809..46371812
+
Hg19::chr2:46371977..46371987,+p@chr2:46371977..46371987
+
Hg19::chr2:71900440..71900451,+p@chr2:71900440..71900451
+
Hg19::chr2:96830780..96830784,+p@chr2:96830780..96830784
+
Hg19::chr3:190979043..190979046,-p@chr3:190979043..190979046
-
Hg19::chr3:191000172..191000209,-p2@UTS2D
Hg19::chr3:194974659..194974681,-p@chr3:194974659..194974681
-
Hg19::chr3:36484747..36484761,+p@chr3:36484747..36484761
+
Hg19::chr3:53684729..53684742,+p@chr3:53684729..53684742
+
Hg19::chr4:107426191..107426193,+p@chr4:107426191..107426193
+
Hg19::chr4:128083368..128083415,-p@chr4:128083368..128083415
-
Hg19::chr4:180052248..180052252,+p@chr4:180052248..180052252
+
Hg19::chr4:22733367..22733375,+p@chr4:22733367..22733375
+
Hg19::chr4:26065138..26065144,-p@chr4:26065138..26065144
-
Hg19::chr4:2944054..2944097,-p@chr4:2944054..2944097
-
Hg19::chr4:2944162..2944169,-p@chr4:2944162..2944169
-
Hg19::chr4:2956267..2956278,-p@chr4:2956267..2956278
-
Hg19::chr5:1491515..1491521,-p@chr5:1491515..1491521
-
Hg19::chr5:150503956..150503965,-p@chr5:150503956..150503965
-
Hg19::chr5:169694286..169694300,-p13@LCP2
Hg19::chr5:171074356..171074365,-p@chr5:171074356..171074365
-
Hg19::chr5:17604288..17604293,+p@chr5:17604288..17604293
+
Hg19::chr5:17655952..17655959,-p1@ENST00000509027
Hg19::chr5:25702184..25702199,+p@chr5:25702184..25702199
+
Hg19::chr5:68256471..68256484,-p@chr5:68256471..68256484
-
Hg19::chr6:135968649..135968699,-p@chr6:135968649..135968699
-
Hg19::chr6:135968819..135968824,-p@chr6:135968819..135968824
-
Hg19::chr6:135968827..135968837,-p@chr6:135968827..135968837
-
Hg19::chr6:155951148..155951191,-p@chr6:155951148..155951191
-
Hg19::chr6:155952417..155952429,-p@chr6:155952417..155952429
-
Hg19::chr6:156420886..156420891,+p@chr6:156420886..156420891
+
Hg19::chr6:157956257..157956277,+p@chr6:157956257..157956277
+
Hg19::chr6:20702932..20702938,-p@chr6:20702932..20702938
-
Hg19::chr6:24258489..24258497,-p@chr6:24258489..24258497
-
Hg19::chr6:5272333..5272336,+p@chr6:5272333..5272336
+
Hg19::chr6:82247351..82247357,-p@chr6:82247351..82247357
-
Hg19::chr7:105448088..105448109,+p@chr7:105448088..105448109
+
Hg19::chr7:114271498..114271513,+p@chr7:114271498..114271513
+
Hg19::chr7:114271520..114271529,+p@chr7:114271520..114271529
+
Hg19::chr7:114271567..114271578,+p@chr7:114271567..114271578
+
Hg19::chr7:114271627..114271634,+p@chr7:114271627..114271634
+
Hg19::chr7:114475361..114475390,+p@chr7:114475361..114475390
+
Hg19::chr7:114475543..114475548,+p@chr7:114475543..114475548
+
Hg19::chr7:114475562..114475569,+p@chr7:114475562..114475569
+
Hg19::chr7:122851400..122851414,+p@chr7:122851400..122851414
+
Hg19::chr7:127200868..127200870,-p@chr7:127200868..127200870
-
Hg19::chr7:151487697..151487709,-p48@PRKAG2
Hg19::chr7:151487713..151487722,-p56@PRKAG2
Hg19::chr7:158254742..158254762,-p@chr7:158254742..158254762
-
Hg19::chr7:55495272..55495320,+p20@LANCL2
Hg19::chr8:133989876..133989879,-p@chr8:133989876..133989879
-
Hg19::chr8:142122991..142122996,-p@chr8:142122991..142122996
-
Hg19::chr8:146005409..146005412,-p@chr8:146005409..146005412
-
Hg19::chr8:29327513..29327519,+p@chr8:29327513..29327519
+
Hg19::chr8:29353538..29353568,+p@chr8:29353538..29353568
+
Hg19::chr8:52557749..52557752,-p@chr8:52557749..52557752
-
Hg19::chr8:8718194..8718198,-p@chr8:8718194..8718198
-
Hg19::chr9:102015453..102015458,-p@chr9:102015453..102015458
-
Hg19::chr9:112170923..112170936,-p@chr9:112170923..112170936
-
Hg19::chr9:112172492..112172521,+p@chr9:112172492..112172521
+
Hg19::chr9:112189474..112189486,-p15@PTPN3
Hg19::chr9:132691908..132691915,-p@chr9:132691908..132691915
-
Hg19::chr9:137280199..137280217,+p@chr9:137280199..137280217
+
Hg19::chr9:139403923..139403926,+p@chr9:139403923..139403926
+
Hg19::chr9:139403937..139403938,+p@chr9:139403937..139403938
+
Hg19::chr9:139443238..139443270,+p1@ENST00000450304
Hg19::chr9:139472125..139472131,-p@chr9:139472125..139472131
-
Hg19::chr9:140202302..140202321,-p@chr9:140202302..140202321
-
Hg19::chr9:140301767..140301775,-p@chr9:140301767..140301775
-
Hg19::chr9:36903705..36903714,-p@chr9:36903705..36903714
-
Hg19::chr9:36903715..36903727,-p@chr9:36903715..36903727
-
Hg19::chr9:90219304..90219312,+p@chr9:90219304..90219312
+
Hg19::chrX:12983809..12983815,-p@chrX:12983809..12983815
-
Hg19::chrX:55208469..55208474,+p@chrX:55208469..55208474
+
Hg19::chrX:84118418..84118422,-p@chrX:84118418..84118422
-


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

p.valueFDRnGenesnPathwayName
1.30672006837127e-050.008271538032790155433IL-2 up reg. targets (Netpath):NetPath_14



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:0005031tumor necrosis factor receptor activity0.00176319760630788
GO:0043120tumor necrosis factor binding0.00176319760630788
GO:0005035death receptor activity0.00176319760630788
GO:0009306protein secretion0.0461291845360076



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>

Cell Type
Ontology termp-valuen
leukocyte1.39e-40140
hematopoietic stem cell6.08e-40172
angioblastic mesenchymal cell6.08e-40172
hematopoietic cell1.60e-39182
hematopoietic oligopotent progenitor cell5.52e-38165
hematopoietic multipotent progenitor cell5.52e-38165
hematopoietic lineage restricted progenitor cell6.10e-33124
nongranular leukocyte9.77e-32119
lymphocyte7.29e-2653
common lymphoid progenitor7.29e-2653
lymphoid lineage restricted progenitor cell3.05e-2552
myeloid cell1.70e-14112
common myeloid progenitor1.70e-14112
lymphocyte of B lineage3.71e-1324
pro-B cell3.71e-1324
myeloid leukocyte9.33e-1276
T cell1.13e-1125
pro-T cell1.13e-1125
granulocyte monocyte progenitor cell1.27e-1071
myeloid lineage restricted progenitor cell1.28e-0970
macrophage dendritic cell progenitor7.18e-0965
mature alpha-beta T cell1.72e-0818
alpha-beta T cell1.72e-0818
immature T cell1.72e-0818
mature T cell1.72e-0818
immature alpha-beta T cell1.72e-0818
monopoietic cell4.11e-0863
monocyte4.11e-0863
monoblast4.11e-0863
promonocyte4.11e-0863
B cell4.69e-0814
CD14-positive, CD16-negative classical monocyte1.02e-0742
classical monocyte2.46e-0745
Uber Anatomy
Ontology termp-valuen
hematopoietic system3.67e-16102
blood island3.67e-16102
hemolymphoid system4.27e-14112
bone marrow8.36e-0980
bone element5.15e-0886
immune system8.85e-08115
adult organism9.72e-08115
blood5.95e-0715
haemolymphatic fluid5.95e-0715
organism substance5.95e-0715
Disease
Ontology termp-valuen
hematologic cancer1.11e-0751
immune system cancer1.11e-0751


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

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

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

Retrieved from "http://f5-webapp4.gsc.riken.jp/resource_browser/index.php?title=Coexpression_cluster:C99&oldid=1851582"