Direct detection of DNA methylation during single-molecule, real-time sequencing

Flusberg, Benjamin A, Webster, Dale R, Lee, Jessica H, Travers, Kevin J, Olivares, Eric C, Clark, Tyson A, Korlach, Jonas, Turner, Stephen W·2010·Nature Methods

Cited by (1,000)

Items 201–300 of 1,000

  1. Beyond sequencing: machine learning algorithms extract biology hidden in Nanopore signal data
    Yuk Kei Wan, Christopher Hendra, Ploy N. Pratanwanich, Jonathan Göke · 2021 · Trends in Genetics
  2. Plant genome resequencing and population genomics: Current status and future prospects
    Bo Song, Weidong Ning, Di Wei, Mengyun Jiang, Kun Zhu, Xingwei Wang, David Edwards, Damaris A. Odeny, Shifeng Cheng · 2023 · Molecular Plant
  3. Identification of a Selective Polymerase Enables Detection of N6-Methyladenosine in RNA
    Emily M. Harcourt, Thomas Ehrenschwender, Pedro J. Batista, Howard Y. Chang, Eric T. Kool · 2013 · Journal of the American Chemical Society
  4. BREX system of Escherichia coli distinguishes self from non-self by methylation of a specific DNA site
    Julia Gordeeva, Natalia Evgenevna Morozova, Nicolas Sierro, Artem B. Isaev, Tomas Šinkūnas, Ksenia Tsvetkova, Mikhail E. Matlashov, Lidija Truncaitė, Richard Morgan, Nikolai V. Ivanov et al. · 2018 · Nucleic Acids Research
  5. Epigenomic characterization of Clostridioides difficile finds a conserved DNA methyltransferase that mediates sporulation and pathogenesis
    Pedro H. Oliveira, John W. Ribis, Elizabeth M. Garrett, Dominika Trzilova, Alex Kim, Ognjen Sekulović, Edward A. Mead, Theodore R. Pak, Shijia Zhu, Gintaras Y. Deikus et al. · 2019 · Nature Microbiology
  6. Efficient and accurate determination of genome-wide DNA methylation patterns in Arabidopsis thaliana with enzymatic methyl sequencing
    Suhua Feng, Zhenhui Zhong, Ming Wang, Steven E. Jacobsen · 2020 · Epigenetics & Chromatin
  7. Global methylation state at base-pair resolution of the Caulobacter genome throughout the cell cycle
    Jennifer B. Kozdon, Michael D. Melfi, Khai Luong, Tyson A. Clark, Matthew Boitano, Susana Wang, Bo Zhou, Diego González, Justine Collier, Stephen W. Turner et al. · 2013 · Proceedings of the National Academy of Sciences
  8. A role for the bacterial GATC methylome in antibiotic stress survival
    Nadia R. Cohen, Christian A Ross, Saloni R. Jain, Rebecca S. Shapiro, Arnaud Gutierrez, Peter A. Belenky, Hu Li, James J. Collins · 2016 · Nature Genetics
  9. Genomic mapping of phosphorothioates reveals partial modification of short consensus sequences
    Bo Cao, Chao Chen, Michael S. DeMott, Qiuxiang Cheng, Tyson A. Clark, Xiaolin Xiong, Xiaoqing Zheng, Vincent L. Butty, Stuart S. Levine, George Yuan et al. · 2014 · Nature Communications
  10. Systematic evasion of the restriction-modification barrier in bacteria
    Christopher D. Johnston, Sean L. Cotton, Susan R. Rittling, Jacqueline Rose Starr, Gary G. Borisy, Floyd E. Dewhirst, Katherine P. Lemon · 2019 · Proceedings of the National Academy of Sciences
  11. Next generation sequencing in epigenetics: Insights and challenges
    Emma L. Meaburn, Reiner Schulz · 2011 · Seminars in Cell and Developmental Biology
  12. Choline Nutrition Programs Brain Development Via DNA and Histone Methylation
    Jan Krzysztof Blusztajn, Tiffany J. Mellott · 2012 · Central Nervous System Agents in Medicinal Chemistry
  13. Mapping epigenetic modifications by sequencing technologies
    Chen, Xiufei, Xu, Haiqi, Shu, Xiao, Song, Chun-Xiao · 2025 · Cell Death & Differentiation
  14. Comprehensive Methylome Characterization of Mycoplasma genitalium and Mycoplasma pneumoniae at Single-Base Resolution
    María Lluch‐Senar, Khai Luong, Verónica Lloréns‐Rico, Javier Delgado, Gang Fang, Kristi E. Spittle, Tyson A. Clark, Eric E. Schadt, Stephen W. Turner, Jonas Korlach et al. · 2013 · PLoS Genetics
  15. Single molecule-level detection and long read-based phasing of epigenetic variations in bacterial methylomes
    John Beaulaurier, Xue‐Song Zhang, Shijia Zhu, Robert Sebra, Chaggai Rosenbluh, Gintaras Y. Deikus, Nan Shen, Diana Munera, Matthew K. Waldor, Andrew J. Chess et al. · 2015 · Nature Communications
  16. Electrochemical Immunosensing Platform for DNA Methyltransferase Activity Analysis and Inhibitor Screening
    Mo Wang, Zhenning Xu, Lijian Chen, Huanshun Yin, Shiyun Ai · 2012 · Analytical Chemistry
  17. Conserved DNA Methyltransferases: A Window into Fundamental Mechanisms of Epigenetic Regulation in Bacteria
    Pedro H. Oliveira, Gang Fang · 2020 · Trends in Microbiology
  18. Modeling kinetic rate variation in third generation DNA sequencing data to detect putative modifications to DNA bases
    Eric E. Schadt, Onureena Banerjee, Gang Fang, Zhixing Feng, Wing Hung Wong, Xuegong Zhang, Andrey O. Kislyuk, Tyson A. Clark, Khai Luong, Alona Keren‐Paz et al. · 2012 · Genome Research
  19. Nanopores Discriminate among Five C5-Cytosine Variants in DNA
    Zachary L. Wescoe, Jacob Matthew Schreiber, Mark A. Akeson · 2014 · Journal of the American Chemical Society
  20. Insights Obtained by Culturing Saccharibacteria With Their Bacterial Hosts
    B. Bor, A. Collins, P. P. Murugkar, S. Balasubramanian, Thao T. To, E. Hendrickson, J. K. Bedree, F. Bidlack, C. Johnston, W. Shi et al. · 2020 · Journal of dentistry research
  21. DNA Sequencing
    Frederick E. Dewey, Stephen Pan, Matthew Thomas Wheeler, Stephen R. Quake, Euan Angus Ashley · 2012 · Circulation
  22. Methylome Diversification through Changes in DNA Methyltransferase Sequence Specificity
    Yoshikazu Furuta, Hiroe Namba-Fukuyo, Tomoko Shibata, Tomoaki Nishiyama, Shuji Shigenobu, Yutaka Suzuki, Sumio Sugano, Mitsuyasu Hasebe, Ichizo Kobayashi · 2014 · PLoS Genetics
  23. Precision methylome characterization ofMycobacterium tuberculosiscomplex (MTBC) using PacBio single-molecule real-time (SMRT) technology
    Lingxiang Zhu, Jun Zhong, Xinmiao Jia, Guan Liu, Yu Kang, Mengxing Dong, Xiuli Zhang, Qian Li, Liya Yue, Cuidan Li et al. · 2015 · Nucleic Acids Research
  24. Next Generation DNA Sequencing and the Future of Genomic Medicine
    Matthew W. Anderson, Iris Schrijver · 2010 · Genes
  25. Advances in the profiling of N6-methyladenosine (m6A) modifications
    Hongxiang Zheng, Xiansheng Zhang, Na Sui · 2020 · Biotechnology Advances
  26. Taking the measure of the methylome
    Stephan Beck · 2010 · Nature Biotechnology
  27. Single-Cell Sequencing Technologies: Current and Future
    Jialong Liang, Wanshi Cai, Zhong Sheng Sun · 2014 · Journal of genetics and genomics/Journal of Genetics and Genomics
  28. Nondestructive enzymatic deamination enables single-molecule long-read amplicon sequencing for the determination of 5-methylcytosine and 5-hydroxymethylcytosine at single-base resolution
    Zhiyi Sun, Romualdas Vaisvila, Laura-Madison Hussong, Bo Yan, Chloé Baum, Lana Saleh, Mala Samaranayake, Shengxi Guan, Nan Dai, Ivan Reis Correa Junior et al. · 2021 · Genome Research
  29. High throughput DNA sequencing: The new sequencing revolution
    Michel Delseny, Bin Han, Y. I. Hsing · 2010 · Plant Science
  30. The DNA methylome
    Mattia Pelizzola, Joseph R. Ecker · 2010 · FEBS Letters
  31. 4mCpred-EL: An Ensemble Learning Framework for Identification of DNA N4-Methylcytosine Sites in the Mouse Genome
    Balachandran Manavalan, Shaherin Basith, Tae Hwan Shin, Da Yeon Lee, Leyi Wei, Gwang Lee · 2019 · Cells
  32. A novel method for the efficient and selective identification of 5-hydroxymethylcytosine in genomic DNA
    Adam B. Robertson, John Arne Dahl, Cathrine Broberg Vågbø, Pankaj Tripathi, Hans Einar Krokan, Arne Klungland · 2011 · Nucleic Acids Research
  33. iDNA6mA (5-step rule): Identification of DNA N6-methyladenine sites in the rice genome by intelligent computational model via Chou's 5-step rule
    Muhammad Tahir, Hilal Tayara, Kil To Chong · 2019 · Chemometrics and Intelligent Laboratory Systems
  34. Single-Molecule Studies of RNA Polymerase: One Singular Sensation, Every Little Step It Takes
    Matthew H. Larson, Robert C. Landick, Steven M. Block · 2011 · Molecular Cell
  35. Mapping and characterizing N6-methyladenine in eukaryotic genomes using single-molecule real-time sequencing
    Shijia Zhu, John Beaulaurier, Gintaras Y. Deikus, Tao Wu, Maya Strahl, Ziyang Hao, Guan‐Zheng Luo, James A. Gregory, Andrew J. Chess, Chuan He et al. · 2018 · Genome Research
  36. Metabolic engineering in chemolithoautotrophic hosts for the production of fuels and chemicals
    S. Eric Nybo, Nymul E. Khan, Benjamin M. Woolston, Wayne R. Curtis · 2015 · Metabolic Engineering
  37. Tissue Culture of Oil Palm: Finding the Balance Between Mass Propagation and Somaclonal Variation
    Sylvie Weckx, Dirk Inzé, Ludo J. Maene · 2019 · Frontiers in Plant Science
  38. Next-Generation Sequencing and Its Application: Empowering in Public Health Beyond Reality
    Nidhi Gupta, Vijay Kumar Verma · 2019 · Microorganisms for sustainability
  39. SNNRice6mA: A Deep Learning Method for Predicting DNA N6-Methyladenine Sites in Rice Genome
    Haitao Yu, Zhiming Dai · 2019 · Frontiers in Genetics
  40. A Comparison of the Whole Genome Approach of MeDIP-Seq to the Targeted Approach of the Infinium HumanMethylation450 BeadChip® for Methylome Profiling
    Christine Clark, Priit Palta, Christopher J. Joyce, Carol Scott, Elin Grundberg, Panos Deloukas, Aarno V. Palotie, Alison J. Coffey · 2012 · PLoS ONE
  41. Third Report on Chicken Genes and Chromosomes 2015
    Michael Schmid, Jacqueline Smith, David W. Burt, Bronwen L. Aken, Parker B. Antin, Alan L. Archibald, Christopher M. Ashwell, Perry J. Blackshear, Clarissa Boschiero, C. Titus Brown et al. · 2015 · Cytogenetic and Genome Research
  42. Electrochemical DNA Methylation Detection for Enzymatically Digested CpG Oligonucleotides
    Dai Kato, Keisuke Goto, Shin‐ichiro Fujii, Akiko Takatsu, Shigeru Hirono, Osamu Niwa · 2011 · Analytical Chemistry
  43. Advances in Genome-Wide DNA Methylation Analysis
    Romi Gupta, Arvindhan Govindasamy Nagarajan, Narendra Wajapeyee · 2010 · BioTechniques
  44. Applications of long-read sequencing to Mendelian genetics
    Francesco Kumara Mastrorosa, Danny E. Miller, Evan E. Eichler · 2023 · Genome Medicine
  45. DNA methylation in schizophrenia: progress and challenges of epigenetic studies
    Masaki Nishioka, Miki Bundo, Kiyoto Kasai, Kazuya Iwamoto · 2012 · Genome Medicine
  46. Dissecting DNA hypermethylation in cancer
    Marcos R. Estecio, Jean‐Pierre J. Issa · 2010 · FEBS Letters
  47. Exposing the DNA methylome iceberg.
    Matladi N. Ndlovu, Hélène Denis, F. Fuks · 2011 · TIBS -Trends in Biochemical Sciences. Regular ed
  48. Introduction to Isoform Sequencing Using Pacific Biosciences Technology (Iso-Seq)
    Manuel L. Gonzalez‐Garay · 2015 · Translational bioinformatics
  49. Analyzing the cancer methylome through targeted bisulfite sequencing
    Eun-Joon Lee, Junfeng Luo, James M. Wilson, Huidong Shi · 2012 · Cancer Letters
  50. Prediction of bio-sequence modifications and the associations with diseases
    Chunyan Ao, Liang Yu, Quan Zou · 2020 · Briefings in Functional Genomics
  51. Occurrence, evolution, and functions of DNA phosphorothioate epigenetics in bacteria
    Tong Tong, Si Chen, Lianrong Wang, You Tang, Jae Yong Ryu, Susu Jiang, Xiaolin Wu, Chao Chen, Jie Luo, Zixin Deng et al. · 2018 · Proceedings of the National Academy of Sciences
  52. Direct Detection and Sequencing of Damaged DNA Bases
    Tyson A. Clark, Kristi E. Spittle, Stephen W. Turner, Jonas Korlach · 2011 · Genome Integrity
  53. Detailed analysis of HTT repeat elements in human blood using targeted amplification-free long-read sequencing
    Ida Höijer, Yu‐Chih Tsai, Tyson A. Clark, Paul Kotturi, Niklas Dahl, Eva‐Lena Stattin, Marie-Louise Bondeson, Lars Feuk, Ulf B Gyllensten, Adam Ameur · 2018 · Human Mutation
  54. Genome-wide peripheral blood leukocyte DNA methylation microarrays identified a single association with inflammatory bowel diseases
    Alan R. Harris, Dorottya Nagy‐Szakal, Natalia Konstantinovich Pedersen, Antone R. Opekun, Jiří Bronský, Pia S. Munkholm, Cathrine Jespersgaard, PaalSkytt Andersen, Béla Melegh, George D. Ferry et al. · 2012 · Inflammatory Bowel Diseases
  55. Comparative genomics of enterohemorrhagic Escherichia coli O145:H28 demonstrates a common evolutionary lineage with Escherichia coli O157:H7
    Kerry K. Cooper, Robert E. Mandrell, Jacqueline W. Louie, Jonas Korlach, Tyson A. Clark, Craig Thomas Parker, Steven Huynh, Patrick Chain, Sanaa A. Ahmed, Michelle Qiu Carter · 2014 · BMC Genomics
  56. i4mC-ROSE, a bioinformatics tool for the identification of DNA N4-methylcytosine sites in the Rosaceae genome
    Md Mehedi Hasan, Balachandran Manavalan, Mst. Shamima Khatun, Hiroyuki Kurata · 2019 · International Journal of Biological Macromolecules
  57. Navigating the pitfalls of mapping DNA and RNA modifications
    Yimeng Kong, Edward A. Mead, Gang Fang · 2023 · Nature Reviews Genetics
  58. The Third-Generation Sequencing Challenge: Novel Insights for the Omic Sciences
    Carmela Scarano, Iolanda Veneruso, Rosa Redenta De Simone, Gennaro Di Bonito, Angela Secondino, Valeria D’Argenio · 2024 · Biomolecules
  59. Epigenetic layers and players underlying neurodevelopment
    Janine M. LaSalle, Weston T. Powell, Dag H. Yasui · 2013 · Trends in Neurosciences
  60. iN6-methylat (5-step): identifying DNA N6-methyladenine sites in rice genome using continuous bag of nucleobases via Chou’s 5-step rule
    Nguyen Quoc Khanh Le · 2019 · Molecular Genetics and Genomics
  61. The Human Imprintome: Regulatory Mechanisms, Methods of Ascertainment, and Roles in Disease Susceptibility
    David A. Skaar, Yulong Li, Adriana Bernal, Cathrine Hoyo, Susan K. Murphy, Randy L. Jirtle · 2012 · ILAR Journal
  62. A sensitive signal-on electrochemical assay for MTase activity using AuNPs amplification
    Xiaoxiao He, Jing Su, Yonghong Wang, Kemin Wang, Xiaoqi Ni, Zhifeng Chen · 2011 · Biosensors and Bioelectronics
  63. Cell Separations and Sorting
    Malgorzata Anna Witek, Ian M. Freed, Steven A. Soper · 2019 · Analytical Chemistry
  64. Beyond Restriction Modification: Epigenomic Roles of DNA Methylation in Prokaryotes
    Brian P. Anton, Richard J. Roberts · 2021 · Annual Review of Microbiology
  65. A new type of DNA phosphorothioation-based antiviral system in archaea
    Lei Xiong, Siyi Liu, Si Chen, Yao Xiao, Bochen Zhu, Yali Gao, Yujing Zhang, Beibei Chen, Jie Luo, Zixin Deng et al. · 2019 · Nature Communications
  66. The impact of next-generation sequencing on the DNA methylation–based translational cancer research
    Javier Andrés Soto, Carlos Rodríguez‐Antolín, Elena Vallespín, Javier de Castro, Inmaculada Ibañez de Cáceres · 2015 · Translational research
  67. The Amaryllidaceae alkaloids: biosynthesis and methods for enzyme discovery
    Matthew B. Kilgore, Toni M. Kutchan · 2015 · Phytochemistry Reviews
  68. Deep4mC: systematic assessment and computational prediction for DNA N4-methylcytosine sites by deep learning
    Haodong Xu, Peilin Jia, Zhongming Zhao · 2020 · Briefings in Bioinformatics
  69. Bacterial DNA Methylation and Methylomes
    Josep Casadesús · 2016 · Advances in experimental medicine and biology
  70. A sensitive electrochemical biosensor for detection of DNA methyltransferase activity by combining DNA methylation-sensitive cleavage and terminal transferase-mediated extension
    Huiwang Wu, Shucheng Liu, Jian‐Hui Jiang, Guo‐Li Shen, Ru‐Qin Yu · 2012 · Chemical Communications
  71. Fantastic Beasts and How To Sequence Them: Ecological Genomics for Obscure Model Organisms
    Mikhail V. Matz · 2017 · Trends in Genetics
  72. The DNA methylation landscape of giant viruses
    Sandra Jeudy, Sofia Rigou, Jean-Marie Alempic, Jean‐Michel Claverie, Chantal Abergel, Matthieu Legendre · 2020 · Nature Communications
  73. Prokaryotic DNA methylation and its functional roles
    Hoon Je Seong, Sang‐Wook Han, Woo Jun Sul · 2021 · The Journal of Microbiology
  74. Technical guide for genetic advancement of underdeveloped and intractable Clostridium
    Pyne, Michael E., Bruder, Mark, Moo-Young, Murray, Chung, Duane A., Chou, C. Perry · 2014 · Biotechnology Advances
  75. NanoMod: a computational tool to detect DNA modifications using Nanopore long-read sequencing data
    Qian Liu, Daniela Georgieva, Dieter M. Egli, Kai Wang · 2019 · BMC Genomics
  76. Stepping stones in DNA sequencing
    M. Taylor, Inonge Mulako, M. Tuffin, Don A. Cowan · 2012 · Biotechnology Journal
  77. Systematic and stochastic influences on the performance of the MinION nanopore sequencer across a range of nucleotide bias
    Raga Krishnakumar, Anupama Sinha, Sara W. Bird, Harikrishnan Jayamohan, Harrison S. Edwards, Joseph S. Schoeniger, Kamlesh D. Patel, Steven S. Branda, Michael S. Bartsch · 2018 · Scientific Reports
  78. Single molecule real-time sequencing of Xanthomonas oryzae genomes reveals a dynamic structure and complex TAL (transcription activator-like) effector gene relationships
    Nicholas J. Booher, Sara C. D. Carpenter, Robert Sebra, Li Wang, Steven L. Salzberg, Jan E. Leach, Adam Joseph Bogdanove · 2015 · Microbial Genomics
  79. Megabase-scale methylation phasing using nanopore long reads and NanoMethPhase
    Vahid Akbari, Jean‐Michel Garant, Kieran O’Neill, Pawan K. Pandoh, Richard A. Moore, Marco A. Marra, Martin Hirst, Steven J.M. Jones · 2021 · Genome biology
  80. Extrachromosomal circular DNA: a new potential role in cancer progression
    Tianyi Wang, Haijian Zhang, You-Lang Zhou, Jia-Hai Shi · 2021 · Journal of Translational Medicine
  81. Epigenomics in cancer management
    Fabrício Falconi Costa · 2010 · Cancer Management and Research
  82. Long-read sequencing technology indicates genome-wide effects of non-B DNA on polymerization speed and error rate
    Wilfried M. Guiblet, Marzia Angela Cremona, Monika Čechová, Robert S. Harris, Iva Kejnovská, Eduard Kejnovský, Kristin A. Eckert, Francesca Chiaromonte, Kateryna D. Makova · 2018 · Genome Research
  83. Quantitative and multiplexed DNA methylation analysis using long-read single-molecule real-time bisulfite sequencing (SMRT-BS)
    Yao Yang, Robert Sebra, Benjamin S Pullman, Wanqiong Qiao, Inga Peter, Robert J. Desnick, Clarence Ronald Geyer, John F. DeCoteau, Stuart Alexander Scott · 2015 · BMC Genomics
  84. The core genome m5C methyltransferase JHP1050 (M.Hpy99III) plays an important role in orchestrating gene expression in Helicobacter pylori
    Iratxe Estibariz, Annemarie Overmann, Florent Ailloud, Juliane Krebes, Christine Josenhans, Sebastian Suerbaum · 2018 · Nucleic Acids Research
  85. DNA tetrahedral nanostructures for the biomedical application and spatial orientation of biomolecules
    Weijun Wang, Mengling Lin, Wenqing Wang, Zhifa Shen, Zai‐Sheng Wu · 2023 · Bioactive Materials
  86. Leveraging the attention mechanism to improve the identification of DNA N6-methyladenine sites
    Ying Zhang, Yan Liu, Jian Xu, Xiaoyu Wang, Xinxin Peng, Jiangning Song, Dong‐Jun Yu · 2021 · Briefings in Bioinformatics
  87. Phasevarions of Bacterial Pathogens: Methylomics Sheds New Light on Old Enemies
    John M. Atack, Aimee Tan, Lauren O. Bakaletz, Michael P. Jennings, Kate L. Seib · 2018 · Trends in Microbiology
  88. A Convolutional Neural Network Using Dinucleotide One-hot Encoder for identifying DNA N6-Methyladenine Sites in the Rice Genome
    Zhibin Lv, Hui Ding, Lei Wang, Quan Zou · 2020 · Neurocomputing
  89. Next-Generation Sequencing and Emerging Technologies*
    Kishore Raj Kumar, Mark J. Cowley, Ryan L. Davis · 2024 · Seminars in Thrombosis and Hemostasis
  90. Resolving the Complexity of Human Skin Metagenomes Using Single-Molecule Sequencing
    Yu‐Chih Tsai, Sean Conlan, Clayton Deming, NISC Comparative Sequencing Program, Julia A. Segre, Heidi H. Kong, Jonas Korlach, Julia Oh · 2016 · mBio
  91. Detection and mapping of DNA methylation with 2D material nanopores
    Hu Qiu, Aditya Sarathy, Klaus J. Schulten, Jean‐Pierre Leburton · 2017 · npj 2D Materials and Applications
  92. i4mC-Mouse: Improved identification of DNA N4-methylcytosine sites in the mouse genome using multiple encoding schemes
    Md Mehedi Hasan, Balachandran Manavalan, Watshara Shoombuatong, Mst. Shamima Khatun, Hiroyuki Kurata · 2020 · Computational and Structural Biotechnology Journal
  93. Next-Generation Sequencing for Confronting Virus Pandemics
    Josep Quer, Sergi Colomer‐Castell, Carolina Filardi de Campos, Cristina Andrés, María Piñana, María Francesca Cortese, Alejandra Gónzalez‐Sánchez, Damir García‐Cehic, Marta Ibañez‐Lligoña, Tomàs Pumarola et al. · 2022 · Viruses
  94. Conservation and divergence of DNA methylation in eukaryotes
    Zhixi Su, Leng Han, Zhongming Zhao · 2011 · Epigenetics
  95. Burkholderia pseudomallei sequencing identifies genomic clades with distinct recombination, accessory, and epigenetic profiles
    Tannistha Nandi, Matthew T.G. Holden, Xavier Didelot, Kurosh S. Mehershahi, Justin A. Boddey, Ifor Beacham, Ian R. A. Peak, John Harting, Primo A. Baybayan, Yan Guo et al. · 2014 · Genome Research
  96. DNA methyltransferase activity detection based on fluorescent silver nanocluster hairpin-shaped DNA probe with 5’-C-rich/G-rich-3’ tails
    Wenting Liu, Han Lai, Rong Huang, Chuntao Zhao, Yimo Wang, Xiaocheng Weng, Xiang Zhou · 2015 · Biosensors and Bioelectronics
  97. Convergence of DNA methylation and phosphorothioation epigenetics in bacterial genomes
    Chao Chen, Lianrong Wang, Si Chen, Xiaolin Wu, Meijia Gu, Xi Chen, Susu Jiang, Yunfu Wang, Zixin Deng, Peter C. Dedon et al. · 2017 · Proceedings of the National Academy of Sciences
  98. Bacterial DNA methyltransferase: A key to the epigenetic world with lessons learned from proteobacteria
    Qun Gao, Shuwei Lu, Yuwei Wang, Longgui He, Mingshu Wang, Renyong Jia, Shun Chen, Dekang Zhu, Mafeng Liu, Xinxin Zhao et al. · 2023 · Frontiers in Microbiology
  99. Computational immunogenomic approaches to predict response to cancer immunotherapies
    Venkateswar Addala, Felicity Newell, John V. Pearson, Alec Redwood, Bruce W.S. Robinson, Jenette Creaney, Nicola Waddell · 2023 · Nature Reviews Clinical Oncology
  100. Detecting DNA Modifications from SMRT Sequencing Data by Modeling Sequence Context Dependence of Polymerase Kinetic
    Zhixing Feng, Gang Fang, Jonas Korlach, Tyson A. Clark, Khai Luong, Xuegong Zhang, Wing Hung Wong, Eric E. Schadt · 2013 · PLoS Computational Biology