Comparison of whole-genome bisulfite sequencing library preparation strategies identifies sources of biases affecting DNA methylation data

被引:0
|
作者
Nelly Olova
Felix Krueger
Simon Andrews
David Oxley
Rebecca V. Berrens
Miguel R. Branco
Wolf Reik
机构
[1] Epigenetics Programme,Blizard Institute, Barts and The London School of Medicine and Dentistry
[2] The Babraham Institute,Centre for Trophoblast Research
[3] Bioinformatics Group,undefined
[4] The Babraham Institute,undefined
[5] Mass Spectrometry Facility,undefined
[6] The Babraham Institute,undefined
[7] Queen Mary University of London,undefined
[8] Wellcome Trust Sanger Institute,undefined
[9] University of Cambridge,undefined
[10] Present address: MRC Human Genetics Unit,undefined
[11] MRC Institute of Genetics and Molecular Medicine,undefined
[12] University of Edinburgh,undefined
来源
关键词
WGBS; Biases; Artefacts; Bisulfite conversion; Degradation; DNA methylation; NGS; Polymerase; GC skew;
D O I
暂无
中图分类号
学科分类号
摘要
引用
收藏
相关论文
共 50 条
  • [21] A comparison of existing global DNA methylation assays to low-coverage whole-genome bisulfite sequencing for epidemiological studies
    Crary-Dooley, Florence K.
    Tam, Mitchell E.
    Dunaway, Keith W.
    Hertz-Picciotto, Irva
    Schmidt, Rebecca J.
    LaSalle, Janine M.
    [J]. EPIGENETICS, 2017, 12 (03) : 206 - 214
  • [22] BoostMe accurately predicts DNA methylation values in whole-genome bisulfite sequencing of multiple human tissues
    Luli S. Zou
    Michael R. Erdos
    D. Leland Taylor
    Peter S. Chines
    Arushi Varshney
    Stephen C. J. Parker
    Francis S. Collins
    John P. Didion
    [J]. BMC Genomics, 19
  • [23] BoostMe accurately predicts DNA methylation values in whole-genome bisulfite sequencing of multiple human tissues
    Zou, Luli S.
    Erdos, Michael R.
    Taylor, D. Leland
    Chines, Peter S.
    Varshney, Arushi
    Parker, Stephen C. J.
    Collins, Francis S.
    Didion, John P.
    [J]. BMC GENOMICS, 2018, 19
  • [24] Comparison and quantitative verification of mapping algorithms for whole-genome bisulfite sequencing
    Kunde-Ramamoorthy, Govindarajan
    Coarfa, Cristian
    Laritsky, Eleonora
    Kessler, Noah J.
    Harris, R. Alan
    Xu, Mingchu
    Chen, Rui
    Shen, Lanlan
    Milosavljevic, Aleksandar
    Waterland, Robert A.
    [J]. NUCLEIC ACIDS RESEARCH, 2014, 42 (06) : e43
  • [25] MethGo: a comprehensive tool for analyzing whole-genome bisulfite sequencing data
    Liao, Wen-Wei
    Yen, Ming-Ren
    Ju, Evaline
    Hsu, Fei-Man
    Lam, Larry
    Chen, Pao-Yang
    [J]. BMC GENOMICS, 2015, 16
  • [26] msPIPE: a pipeline for the analysis and visualization of whole-genome bisulfite sequencing data
    Heesun Kim
    Mikang Sim
    Nayoung Park
    Kisang Kwon
    Junyoung Kim
    Jaebum Kim
    [J]. BMC Bioinformatics, 23
  • [27] Whole-genome bisulfite sequencing of single circulating tumor cells identifies cellular methylation heterogeneity in metastatic breast cancer
    Luo, Rui
    Chong, Weelic
    Zhang, Zhenchao
    Abu-Khalaf, Maysa
    Silver, Daniel
    Fellin, Frederick
    Jaslow, Rebecca
    Lopez, AnaMaria
    Cescon, Terrence
    Ip, Kevan
    Myers, Ronald
    Wei, Qiang
    Li, Bingshan
    Wang, Chun
    Yang, Hushan
    [J]. CANCER RESEARCH, 2023, 83 (05)
  • [28] msPIPE: a pipeline for the analysis and visualization of whole-genome bisulfite sequencing data
    Kim, Heesun
    Sim, Mikang
    Park, Nayoung
    Kwon, Kisang
    Kim, Junyoung
    Kim, Jaebum
    [J]. BMC BIOINFORMATICS, 2022, 23 (01)
  • [29] MethGo: a comprehensive tool for analyzing whole-genome bisulfite sequencing data
    Wen-Wei Liao
    Ming-Ren Yen
    Evaline Ju
    Fei-Man Hsu
    Larry Lam
    Pao-Yang Chen
    [J]. BMC Genomics, 16
  • [30] Whole-genome bisulfite sequencing of cell-free DNA identifies signature associated with metastatic breast cancer
    Christophe Legendre
    Gerald C. Gooden
    Kyle Johnson
    Rae Anne Martinez
    Winnie S. Liang
    Bodour Salhia
    [J]. Clinical Epigenetics, 2015, 7