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Coexpression cluster:C156

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Full id: C156_plasma_splenic_hereditary_B_large_xeroderma_b



Phase1 CAGE Peaks

  Short description
Hg19::chr10:56410468..56410499,- p@chr10:56410468..56410499
-
Hg19::chr10:92426203..92426205,- p@chr10:92426203..92426205
-
Hg19::chr11:26501062..26501069,- p@chr11:26501062..26501069
-
Hg19::chr11:41501367..41501373,+ p@chr11:41501367..41501373
+
Hg19::chr12:10205220..10205239,+ p4@AB590792
Hg19::chr12:10205256..10205285,+ p2@AB590792
Hg19::chr12:39008217..39008221,+ p@chr12:39008217..39008221
+
Hg19::chr12:40953908..40953923,+ p@chr12:40953908..40953923
+
Hg19::chr12:40953942..40953946,+ p@chr12:40953942..40953946
+
Hg19::chr12:40953952..40953977,+ p@chr12:40953952..40953977
+
Hg19::chr12:40953998..40954021,+ p@chr12:40953998..40954021
+
Hg19::chr12:40991131..40991149,+ +
p@chr12:40991131..40991149
Hg19::chr14:106589870..106589873,- p@chr14:106589870..106589873
-
Hg19::chr14:106829914..106829921,- p1@HM996258
p1@HM996415
p1@HM996438
Hg19::chr14:107160349..107160365,- p1@IGHV1-68
Hg19::chr14:22942233..22942253,+ p2@uc001wec.2
Hg19::chr14:54342069..54342074,- p@chr14:54342069..54342074
-
Hg19::chr17:25546162..25546166,+ p@chr17:25546162..25546166
+
Hg19::chr17:76471146..76471155,+ p@chr17:76471146..76471155
+
Hg19::chr17:76471163..76471166,+ p@chr17:76471163..76471166
+
Hg19::chr17:76473890..76473895,+ p@chr17:76473890..76473895
+
Hg19::chr17:76475138..76475154,- p@chr17:76475138..76475154
-
Hg19::chr17:76475275..76475285,- p@chr17:76475275..76475285
-
Hg19::chr17:76480917..76480935,+ p@chr17:76480917..76480935
+
Hg19::chr17:76480937..76480971,+ p@chr17:76480937..76480971
+
Hg19::chr17:76480973..76481009,+ p@chr17:76480973..76481009
+
Hg19::chr17:76483088..76483092,+ p@chr17:76483088..76483092
+
Hg19::chr18:28728570..28728577,- p@chr18:28728570..28728577
-
Hg19::chr18:28728597..28728607,- -
p@chr18:28728597..28728607
Hg19::chr18:67696064..67696069,- p@chr18:67696064..67696069
-
Hg19::chr19:42041721..42041734,+ p8@CEACAM21
Hg19::chr1:101853882..101853891,- p@chr1:101853882..101853891
-
Hg19::chr1:17349613..17349631,- p8@SDHB
Hg19::chr1:17349654..17349690,- p6@SDHB
Hg19::chr1:233621292..233621303,- p@chr1:233621292..233621303
-
Hg19::chr1:75045223..75045244,- p13@C1orf173
Hg19::chr1:75045269..75045282,- p19@C1orf173
Hg19::chr1:91072926..91072932,- p@chr1:91072926..91072932
-
Hg19::chr21:16209394..16209398,- p@chr21:16209394..16209398
-
Hg19::chr21:20740945..20740987,- p@chr21:20740945..20740987
-
Hg19::chr21:20741173..20741184,- p@chr21:20741173..20741184
-
Hg19::chr21:20741243..20741260,- p@chr21:20741243..20741260
-
Hg19::chr21:20741370..20741383,- p@chr21:20741370..20741383
-
Hg19::chr21:20747453..20747465,- p@chr21:20747453..20747465
-
Hg19::chr21:20752389..20752420,- p@chr21:20752389..20752420
-
Hg19::chr21:20752617..20752622,- p@chr21:20752617..20752622
-
Hg19::chr21:20752643..20752654,- p@chr21:20752643..20752654
-
Hg19::chr21:20752678..20752693,- p@chr21:20752678..20752693
-
Hg19::chr21:20867728..20867731,- p@chr21:20867728..20867731
-
Hg19::chr2:101054417..101054453,+ p@chr2:101054417..101054453
+
Hg19::chr2:151428755..151428762,- p1@ENST00000441356
Hg19::chr2:157336503..157336506,- p@chr2:157336503..157336506
-
Hg19::chr2:197274224..197274231,- p@chr2:197274224..197274231
-
Hg19::chr2:197274235..197274251,- p@chr2:197274235..197274251
-
Hg19::chr2:197274253..197274273,- p@chr2:197274253..197274273
-
Hg19::chr2:197274274..197274279,- p@chr2:197274274..197274279
-
Hg19::chr2:77581116..77581120,- p@chr2:77581116..77581120
-
Hg19::chr2:77745761..77745773,- p1@CU676050
Hg19::chr2:77746703..77746711,- p9@LRRTM4
Hg19::chr2:77746775..77746779,- p14@LRRTM4
Hg19::chr2:77748814..77748822,- p@chr2:77748814..77748822
-
Hg19::chr2:77749342..77749350,- p7@LRRTM4
Hg19::chr3:111298881..111298895,- p@chr3:111298881..111298895
-
Hg19::chr3:158747347..158747353,+ p@chr3:158747347..158747353
+
Hg19::chr3:168236611..168236612,- p@chr3:168236611..168236612
-
Hg19::chr3:168337915..168337930,- p@chr3:168337915..168337930
-
Hg19::chr3:178947187..178947192,+ p@chr3:178947187..178947192
+
Hg19::chr3:189839512..189839520,- p21@LEPREL1
Hg19::chr3:189840223..189840229,- p26@LEPREL1
Hg19::chr3:6210160..6210166,+ p@chr3:6210160..6210166
+
Hg19::chr3:6686484..6686491,+ p@chr3:6686484..6686491
+
Hg19::chr3:6759235..6759249,+ p@chr3:6759235..6759249
+
Hg19::chr3:77121235..77121260,+ p@chr3:77121235..77121260
+
Hg19::chr3:78809269..78809276,+ p@chr3:78809269..78809276
+
Hg19::chr3:79363599..79363606,+ p@chr3:79363599..79363606
+
Hg19::chr3:83280278..83280318,+ +
p@chr3:83280278..83280318
Hg19::chr4:185275104..185275133,- p3@LOC728175
Hg19::chr4:3881462..3881469,- p@chr4:3881462..3881469
-
Hg19::chr5:114289920..114289928,+ p@chr5:114289920..114289928
+
Hg19::chr5:114291872..114291873,+ p@chr5:114291872..114291873
+
Hg19::chr5:156349518..156349526,- p@chr5:156349518..156349526
-
Hg19::chr5:156349549..156349558,- p@chr5:156349549..156349558
-
Hg19::chr5:157836687..157836702,- p2@BC047601
Hg19::chr5:54320526..54320558,+ p@chr5:54320526..54320558
+
Hg19::chr5:88646759..88646764,+ p@chr5:88646759..88646764
+
Hg19::chr6:130878898..130878925,+ p@chr6:130878898..130878925
+
Hg19::chr6:130881420..130881455,- p@chr6:130881420..130881455
-
Hg19::chr6:164466325..164466331,+ p@chr6:164466325..164466331
+
Hg19::chr6:164466345..164466352,+ p@chr6:164466345..164466352
+
Hg19::chr6:164466441..164466449,+ p@chr6:164466441..164466449
+
Hg19::chr6:166581221..166581226,- p8@T
Hg19::chr6:166581265..166581274,- p5@T
Hg19::chr6:166581392..166581398,+ p@chr6:166581392..166581398
+
Hg19::chr6:166581393..166581398,- p6@T
Hg19::chr6:166581486..166581494,+ p@chr6:166581486..166581494
+
Hg19::chr6:166581583..166581586,+ p@chr6:166581583..166581586
+
Hg19::chr6:166581590..166581596,+ p@chr6:166581590..166581596
+
Hg19::chr6:166581606..166581615,+ p@chr6:166581606..166581615
+
Hg19::chr6:166620455..166620466,+ p@chr6:166620455..166620466
+
Hg19::chr6:24780070..24780082,+ p@chr6:24780070..24780082
+
Hg19::chr6:41303336..41303361,+ p1@NCR2
Hg19::chr6:41303372..41303386,+ p2@NCR2
Hg19::chr7:86415255..86415288,+ p@chr7:86415255..86415288
+
Hg19::chr8:128270027..128270033,- p@chr8:128270027..128270033
-
Hg19::chr8:84605743..84605748,- p@chr8:84605743..84605748
-
Hg19::chrX:11750805..11750811,+ +
p@chrX:11750805..11750811
Hg19::chrX:11786438..11786451,+ p9@MSL3
Hg19::chrX:11786454..11786465,+ p25@MSL3
Hg19::chrX:11786498..11786511,+ p10@MSL3
Hg19::chrX:18701132..18701138,- p@chrX:18701132..18701138
-
Hg19::chrX:78887125..78887131,+ p@chrX:78887125..78887131
+


Enriched pathways on this co-expression clusterSummary:
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.
Analyst: Emmanuel Dimont

link to source dataset
data


No results for this coexpression

Enriched Gene Ontology terms on this co-expression clusterSummary: 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.
Analyst: Erik Arner

link to source dataset
data


GO IDGO nameFDR corrected p-value
GO:00515383 iron, 4 sulfur cluster binding0.0167858278404302
GO:0008177succinate dehydrogenase (ubiquinone) activity0.0167858278404302
GO:0016635oxidoreductase activity, acting on the CH-CH group of donors, quinone or related compound as acceptor0.0167858278404302
GO:0019797procollagen-proline 3-dioxygenase activity0.0167858278404302
GO:0031544peptidyl-proline 3-dioxygenase activity0.0167858278404302
GO:0030903notochord development0.0167858278404302
GO:0019798procollagen-proline dioxygenase activity0.0167858278404302
GO:0008595determination of anterior/posterior axis, embryo0.0167858278404302
GO:0031543peptidyl-proline dioxygenase activity0.0167858278404302
GO:0007350blastoderm segmentation0.0167858278404302
GO:0000578embryonic axis specification0.0167858278404302
GO:0007351tripartite regional subdivision0.0167858278404302
GO:0009948anterior/posterior axis specification0.0215643152712485
GO:0001843neural tube closure0.0215643152712485
GO:0014020primary neural tube formation0.0215643152712485
GO:00515372 iron, 2 sulfur cluster binding0.0215643152712485
GO:0001839neural plate morphogenesis0.0215643152712485
GO:0001841neural tube formation0.0215643152712485
GO:0001840neural plate development0.0215643152712485
GO:0001838embryonic epithelial tube formation0.0215643152712485
GO:0005506iron ion binding0.0215643152712485
GO:0009798axis specification0.0215643152712485
GO:0001756somitogenesis0.0215643152712485
GO:0001570vasculogenesis0.0215643152712485
GO:0021915neural tube development0.0218502314848091
GO:0048568embryonic organ development0.0221139915192385
GO:0031418L-ascorbic acid binding0.0225845386272072
GO:0016331morphogenesis of embryonic epithelium0.0225845386272072
GO:0035282segmentation0.026751771639665
GO:0009880embryonic pattern specification0.0268158520672449
GO:0006099tricarboxylic acid cycle0.0347950444107773
GO:00515394 iron, 4 sulfur cluster binding0.0347950444107773
GO:0046356acetyl-CoA catabolic process0.0347950444107773
GO:0006084acetyl-CoA metabolic process0.0348997532553667
GO:0016706oxidoreductase activity, acting on paired donors, with incorporation or reduction of molecular oxygen, 2-oxoglutarate as one donor, and incorporation of one atom each of oxygen into both donors0.0348997532553667
GO:0007498mesoderm development0.0348997532553667
GO:0009109coenzyme catabolic process0.0348997532553667
GO:0051187cofactor catabolic process0.0375081296696971
GO:0009060aerobic respiration0.0375081296696971
GO:0009952anterior/posterior pattern formation0.039427089884365
GO:0045333cellular respiration0.0405546168028565
GO:0002009morphogenesis of an epithelium0.0429860620968055
GO:0006968cellular defense response0.047952679626127
GO:0051213dioxygenase activity0.0497766190448711
GO:0016702oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen0.0497766190448711
GO:0016701oxidoreductase activity, acting on single donors with incorporation of molecular oxygen0.0497766190448711



Enriched sample ontology terms on this co-expression clusterSummary: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. Analyst: Hideya Kawaji

links to source dataset

cell_data



Cell Type
Ontology termp-valuen
antibody secreting cell5.42e-1951
plasma cell5.42e-1951
plasmablast5.42e-1951
mature B cell1.55e-982
pre-B-II cell1.55e-982
transitional stage B cell1.55e-982
small pre-B-II cell1.55e-982
immature B cell1.55e-982
precursor B cell2.39e-663
B cell1.43e-1514
lymphocyte of B lineage1.01e-0924
pro-B cell1.01e-0924
secretory cell5.81e-0736


Overrepresented TFBS (DNA) motifs on this co-expression clusterSummary: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. Analyst: Michiel de Hoon

link to source data
Novel motifs
data

Jaspar motifs
data


Novel motifs



JASPAR motifs

Motifs-log10(p-value)
MA0003.14.04497e-12
MA0004.10.408269
MA0006.10.00161067
MA0007.10.0220739
MA0009.11.45368
MA0014.11.08765e-09
MA0017.10.0329079
MA0019.10.119122
MA0024.10.172364
MA0025.10.140326
MA0027.11.39806
MA0028.10.00237158
MA0029.10.189368
MA0030.10.711341
MA0031.10.553633
MA0038.10.329556
MA0040.11.1575
MA0041.11.19789
MA0042.11.00271
MA0043.10.0800788
MA0046.10.26244
MA0048.10.0025367
MA0050.12.72068
MA0051.11.04069
MA0052.14.79043
MA0055.10.00402484
MA0056.10
MA0057.10.00735416
MA0058.10.171046
MA0059.10.0955605
MA0060.10.55688
MA0061.10.280293
MA0063.10
MA0066.10.0830069
MA0067.10.249504
MA0068.10.0853318
MA0069.11.39732
MA0070.10.246777
MA0071.11.16539
MA0072.10.519556
MA0073.19.60026e-11
MA0074.10.0259657
MA0076.10.00198607
MA0077.12.39088
MA0078.10.0636263
MA0081.10.16889
MA0083.10.591636
MA0084.10.384661
MA0087.10.2397
MA0088.10.0268323
MA0089.10
MA0090.10.716114
MA0091.10.150975
MA0092.10.308568
MA0093.10.442354
MA0095.10
MA0098.10
MA0100.10.00572117
MA0101.10.457341
MA0103.10.18063
MA0105.10.316576
MA0106.10.242414
MA0107.10.635499
MA0108.21.25126
MA0109.10
MA0111.10.16046
MA0113.10.130629
MA0114.10.00277744
MA0115.10.2009
MA0116.10.00952635
MA0117.10.0951982
MA0119.10.227727
MA0122.10.10652
MA0124.11.00422
MA0125.10.814913
MA0130.10
MA0131.10.0157595
MA0132.10
MA0133.10
MA0135.11.06298
MA0136.10.191493
MA0139.10.000367787
MA0140.11.47734
MA0141.10.0191452
MA0142.10.775437
MA0143.10.130796
MA0144.10.0122751
MA0145.10.0202809
MA0146.15.05086e-06
MA0147.10.133329
MA0148.10.315197
MA0149.10.0508638
MA0062.20.000144689
MA0035.20.858024
MA0039.24.63971e-09
MA0138.20.0642271
MA0002.20.741757
MA0137.20.101395
MA0104.20.0704467
MA0047.21.2119
MA0112.20.0142563
MA0065.20.00873677
MA0150.10.0100228
MA0151.10
MA0152.10.137931
MA0153.10.389095
MA0154.10.000719137
MA0155.12.96313e-05
MA0156.10.104627
MA0157.10.691895
MA0158.10
MA0159.10.0237243
MA0160.10.107948
MA0161.10
MA0162.13.59278e-10
MA0163.10.0166485
MA0164.10.290208
MA0080.20.132865
MA0018.20.116895
MA0099.20.893764
MA0079.20
MA0102.20.413769
MA0258.10.00381001
MA0259.10.0281085
MA0442.10



ENCODE TF ChIP-seq peak enrichment analysisSummary: 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.
Analyst: Erik Arner

link to source dataset

data


(#promoters = Number of promoters in this coexpression cluster that have ChIP signal of the TF)

TF#promotersEnrichmentp-valueq-value
BATF#10538122.633275869438230.002073117331369490.0120172226769661
EBF1#1879312.487391641834591.13569323456296e-064.66053696363541e-05
IRF4#3662142.763992591120880.0005470085286366710.00472335872032123
MEF2A#4205142.364011105720870.00239791046071180.013526079967933



Relative expression of the co-expression clusterSummary:Co-expression clusters are compared against FANTOM5 samples to obtain relative expression.
Analyst:NA

link to data source
data