Genome-wide identification of methylated CpG sites in nongenital cutaneous warts.
CpG
DNA methylation
Epigenetics
HPV
Warts
Journal
BMC medical genomics
ISSN: 1755-8794
Titre abrégé: BMC Med Genomics
Pays: England
ID NLM: 101319628
Informations de publication
Date de publication:
08 07 2020
08 07 2020
Historique:
received:
14
06
2019
accepted:
19
06
2020
entrez:
10
7
2020
pubmed:
10
7
2020
medline:
11
5
2021
Statut:
epublish
Résumé
Low-risk HPV infection has not been the subject of epigenetic investigation. The present study was carried out in order to investigate the methylation status of CpG sites in non-genital cutaneous warts. Genomic DNA was extracted from 24 paired epidermal samples of warts and normal skin. DNA samples were bisulfite converted and underwent genome-wide methylation profiling using the Infinium MethylationEPIC BeadChip Kit. From a total of 844,234 CpG sites, 56,960 and 43,040 CpG sites were found to be hypo- and hypermethylated, respectively, in non-genital cutaneous warts. The most differentially methylated CpG sites in warts were located within the C10orf26, FAM83H-AS1, ZNF644, LINC00702, GSAP, STAT5A, HDAC4, NCALD, and EXOC4 genes. Non-genital cutaneous warts exhibit a unique CpG methylation signature.
Sections du résumé
BACKGROUND
Low-risk HPV infection has not been the subject of epigenetic investigation. The present study was carried out in order to investigate the methylation status of CpG sites in non-genital cutaneous warts.
METHODS
Genomic DNA was extracted from 24 paired epidermal samples of warts and normal skin. DNA samples were bisulfite converted and underwent genome-wide methylation profiling using the Infinium MethylationEPIC BeadChip Kit.
RESULTS
From a total of 844,234 CpG sites, 56,960 and 43,040 CpG sites were found to be hypo- and hypermethylated, respectively, in non-genital cutaneous warts. The most differentially methylated CpG sites in warts were located within the C10orf26, FAM83H-AS1, ZNF644, LINC00702, GSAP, STAT5A, HDAC4, NCALD, and EXOC4 genes.
CONCLUSION
Non-genital cutaneous warts exhibit a unique CpG methylation signature.
Identifiants
pubmed: 32641122
doi: 10.1186/s12920-020-00745-6
pii: 10.1186/s12920-020-00745-6
pmc: PMC7346436
doi:
Types de publication
Journal Article
Langues
eng
Sous-ensembles de citation
IM
Pagination
100Subventions
Organisme : Jordan University of Science and Technology
ID : 177/2017
Pays : International
Références
Cytokine. 2016 Jun;82:70-9
pubmed: 26876578
Oncol Lett. 2018 Feb;15(2):1861-1868
pubmed: 29434883
Mol Psychiatry. 2013 Jan;18(1):11-2
pubmed: 22182936
Arch Dermatol Res. 2008 Mar;300(3):139-45
pubmed: 18259765
Virology. 2009 Aug 15;391(1):57-63
pubmed: 19552933
Elife. 2015 Apr 22;4:
pubmed: 25900010
PLoS One. 2019 Jan 4;14(1):e0210289
pubmed: 30608989
Respir Res. 2018 Aug 2;19(1):145
pubmed: 30068332
Schizophr Res. 2015 May;164(1-3):181-6
pubmed: 25778617
PLoS Pathog. 2013;9(4):e1003295
pubmed: 23593005
Int J Appl Basic Med Res. 2016 Apr-Jun;6(2):84-9
pubmed: 27127735
Sci Rep. 2018 Aug 21;8(1):12520
pubmed: 30131570
Exp Cell Res. 2017 Feb 1;351(1):51-58
pubmed: 28034671
Am J Pathol. 2013 Jun;182(6):2264-75
pubmed: 23660011
J Natl Cancer Inst. 2012 Apr 4;104(7):556-65
pubmed: 22448030
Epigenetics. 2018;13(7):769-778
pubmed: 30079796
Epigenomics. 2014 Feb;6(1):139-50
pubmed: 24579951
Oncol Rep. 2018 Nov;40(5):2619-2627
pubmed: 30226605
Mol Med Rep. 2012 May;5(5):1215-9
pubmed: 22367509
Clin Cancer Res. 2012 Jan 1;18(1):127-39
pubmed: 22090359
Nucleic Acids Res. 2016 Jan 4;44(D1):D548-54
pubmed: 26467481
Genes Dev. 1997 Jan 15;11(2):179-86
pubmed: 9009201
Mol Med Rep. 2015 Mar;11(3):2315-21
pubmed: 25395162
Viruses. 2017 Aug 30;9(9):
pubmed: 28867768
Clin Epigenetics. 2010 Sep;1(1-2):13-24
pubmed: 22704086
Virus Res. 2017 Mar 2;231:21-33
pubmed: 27890631
Genes Dev. 2011 May 15;25(10):1010-22
pubmed: 21576262
J Oral Biol Craniofac Res. 2017 Sep-Dec;7(3):198-205
pubmed: 29124000
Int J Biol Sci. 2017 May 16;13(6):748-758
pubmed: 28656000
PLoS Genet. 2011 Jun;7(6):e1002084
pubmed: 21695231
FEBS Lett. 2009 Jun 5;583(11):1713-20
pubmed: 19376112
Aging (Albany NY). 2016 Jun;8(6):1236-49
pubmed: 27295551
Brief Funct Genomics. 2013 May;12(3):174-90
pubmed: 23341493
Nucleic Acids Res. 2015 Apr 20;43(7):e47
pubmed: 25605792
Viruses. 2017 Nov 17;9(11):
pubmed: 29149060
J Mol Cell Biol. 2019 Feb 1;11(2):158-169
pubmed: 29800227
Genome Med. 2017 Apr 5;9(1):33
pubmed: 28381277
Blood. 2006 Sep 15;108(6):1984-90
pubmed: 16709928
Am J Pathol. 2014 Apr;184(4):897-911
pubmed: 24525150
Nat Commun. 2015 Oct 12;6:8428
pubmed: 26455434
Biotechnol Adv. 2012 Jan-Feb;30(1):4-15
pubmed: 21740962
Br J Dermatol. 2006 Apr;154(4):586-93
pubmed: 16536798
J Biol Chem. 2013 Jan 25;288(4):2521-31
pubmed: 23209290
J Recept Signal Transduct Res. 2010 Jun;30(3):178-88
pubmed: 20415542
Proc Natl Acad Sci U S A. 2018 Nov 20;115(47):E11138-E11147
pubmed: 30385631
Oncol Lett. 2016 Nov;12(5):4068-4074
pubmed: 27895773
J Virol. 2003 Jan;77(2):1614-20
pubmed: 12502878
Biol Direct. 2016 Mar 22;11(1):11
pubmed: 27005429
Virology. 2009 Jun 5;388(2):260-9
pubmed: 19398117
Arch Pathol Lab Med. 2015 Nov;139(11):1373-8
pubmed: 25978766
Virol J. 2010 Sep 16;7:237
pubmed: 20846395
Viruses. 2018 Feb 13;10(2):
pubmed: 29438328
J Alzheimers Dis. 2014;41(3):729-37
pubmed: 24662099
J Invest Dermatol. 2007 Jul;127(7):1728-35
pubmed: 17330131
Nat Methods. 2014 Nov;11(11):1138-1140
pubmed: 25262207
Oncogenesis. 2018 Jul 30;7(7):54
pubmed: 30057418
Genes (Basel). 2017 May 23;8(6):
pubmed: 28545252
Cell Tissue Res. 2016 Sep;365(3):495-506
pubmed: 27461257
Cancer Res. 2009 Jan 15;69(2):449-57
pubmed: 19147557
PLoS One. 2012;7(11):e50533
pubmed: 23226306
Onco Targets Ther. 2016 Nov 15;9:7039-7045
pubmed: 27895496
Am J Blood Res. 2013;3(1):58-70
pubmed: 23358828
Biomed Pharmacother. 2019 May;113:108718
pubmed: 30849635
Gynecol Oncol. 2017 Dec;147(3):654-662
pubmed: 29050779