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For: Giehr P, Kyriakopoulos C, Ficz G, Wolf V, Walter J. The Influence of Hydroxylation on Maintaining CpG Methylation Patterns: A Hidden Markov Model Approach. PLoS Comput Biol 2016;12:e1004905. [PMID: 27224554 PMCID: PMC4880293 DOI: 10.1371/journal.pcbi.1004905] [Citation(s) in RCA: 16] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/30/2015] [Accepted: 04/07/2016] [Indexed: 01/11/2023]  Open
Number Cited by Other Article(s)
1
Effendi WI, Nagano T. Epigenetics Approaches toward Precision Medicine for Idiopathic Pulmonary Fibrosis: Focus on DNA Methylation. Biomedicines 2023;11:biomedicines11041047. [PMID: 37189665 DOI: 10.3390/biomedicines11041047] [Citation(s) in RCA: 6] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/24/2023] [Revised: 03/22/2023] [Accepted: 03/23/2023] [Indexed: 03/31/2023]  Open
2
Kyriakopoulos C, Nordström K, Kramer PL, Gottfreund JY, Salhab A, Arand J, Müller F, von Meyenn F, Ficz G, Reik W, Wolf V, Walter J, Giehr P. A comprehensive approach for genome-wide efficiency profiling of DNA modifying enzymes. CELL REPORTS METHODS 2022;2:100187. [PMID: 35475220 PMCID: PMC9017147 DOI: 10.1016/j.crmeth.2022.100187] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 11/28/2021] [Revised: 01/19/2022] [Accepted: 03/01/2022] [Indexed: 10/25/2022]
3
Direct and Base Excision Repair-Mediated Regulation of a GC-Rich cis-Element in Response to 5-Formylcytosine and 5-Carboxycytosine. Int J Mol Sci 2021;22:ijms222011025. [PMID: 34681690 PMCID: PMC8539351 DOI: 10.3390/ijms222011025] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/07/2021] [Revised: 10/06/2021] [Accepted: 10/07/2021] [Indexed: 11/25/2022]  Open
4
Hairpin-Bisulfite PCR. Methods Mol Biol 2021;2198:287-299. [PMID: 32822039 DOI: 10.1007/978-1-0716-0876-0_22] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/23/2022]
5
Luck A, Giehr P, Nordstrom K, Walter J, Wolf V. Hidden Markov Modelling Reveals Neighborhood Dependence of Dnmt3a and 3b Activity. IEEE/ACM TRANSACTIONS ON COMPUTATIONAL BIOLOGY AND BIOINFORMATICS 2019;16:1598-1609. [PMID: 31027045 DOI: 10.1109/tcbb.2019.2910814] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/09/2023]
6
Giehr P, Kyriakopoulos C, Lepikhov K, Wallner S, Wolf V, Walter J. Two are better than one: HPoxBS - hairpin oxidative bisulfite sequencing. Nucleic Acids Res 2019;46:e88. [PMID: 29912476 PMCID: PMC6125676 DOI: 10.1093/nar/gky422] [Citation(s) in RCA: 8] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/22/2018] [Accepted: 06/13/2018] [Indexed: 12/30/2022]  Open
7
Nichtkanonische Basen im Genom: die regulative Informationsebene in der DNA. Angew Chem Int Ed Engl 2018. [DOI: 10.1002/ange.201708228] [Citation(s) in RCA: 12] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/07/2022]
8
Carell T, Kurz MQ, Müller M, Rossa M, Spada F. Non-canonical Bases in the Genome: The Regulatory Information Layer in DNA. Angew Chem Int Ed Engl 2018;57:4296-4312. [DOI: 10.1002/anie.201708228] [Citation(s) in RCA: 69] [Impact Index Per Article: 9.9] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/10/2017] [Indexed: 01/06/2023]
9
Kelsey G, Stegle O, Reik W. Single-cell epigenomics: Recording the past and predicting the future. Science 2018;358:69-75. [PMID: 28983045 DOI: 10.1126/science.aan6826] [Citation(s) in RCA: 269] [Impact Index Per Article: 38.4] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/12/2022]
10
Giehr P, Walter J. Hairpin Bisulfite Sequencing: Synchronous Methylation Analysis on Complementary DNA Strands of Individual Chromosomes. Methods Mol Biol 2018;1708:573-586. [PMID: 29224164 DOI: 10.1007/978-1-4939-7481-8_29] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 06/07/2023]
11
Lan J, Lepikhov K, Giehr P, Walter J. Histone and DNA methylation control by H3 serine 10/threonine 11 phosphorylation in the mouse zygote. Epigenetics Chromatin 2017;10:5. [PMID: 28228845 PMCID: PMC5307733 DOI: 10.1186/s13072-017-0112-x] [Citation(s) in RCA: 14] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/31/2016] [Accepted: 01/23/2017] [Indexed: 11/22/2022]  Open
12
Ponnaluri VKC, Ehrlich KC, Zhang G, Lacey M, Johnston D, Pradhan S, Ehrlich M. Association of 5-hydroxymethylation and 5-methylation of DNA cytosine with tissue-specific gene expression. Epigenetics 2017;12:123-138. [PMID: 27911668 PMCID: PMC5330441 DOI: 10.1080/15592294.2016.1265713] [Citation(s) in RCA: 48] [Impact Index Per Article: 6.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/17/2016] [Revised: 11/10/2016] [Accepted: 11/21/2016] [Indexed: 12/15/2022]  Open
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