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For: Powell JR, Bennett MR, Evans KE, Yu S, Webster RM, Waters R, Skinner N, Reed SH. 3D-DIP-Chip: a microarray-based method to measure genomic DNA damage. Sci Rep 2015;5:7975. [PMID: 25609656 DOI: 10.1038/srep07975] [Citation(s) in RCA: 32] [Impact Index Per Article: 3.2] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/05/2014] [Accepted: 12/15/2014] [Indexed: 11/08/2022]  Open
Number Cited by Other Article(s)
1
Smerdon MJ, Wyrick JJ, Delaney S. A half century of exploring DNA excision repair in chromatin. J Biol Chem 2023;299:105118. [PMID: 37527775 PMCID: PMC10498010 DOI: 10.1016/j.jbc.2023.105118] [Citation(s) in RCA: 10] [Impact Index Per Article: 5.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/26/2023] [Revised: 07/23/2023] [Accepted: 07/25/2023] [Indexed: 08/03/2023]  Open
2
A split β-lactamase sensor for the detection of DNA modification by cisplatin and ruthenium-based chemotherapeutic drugs. J Inorg Biochem 2022;236:111986. [PMID: 36084568 DOI: 10.1016/j.jinorgbio.2022.111986] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/24/2021] [Revised: 08/23/2022] [Accepted: 08/28/2022] [Indexed: 12/15/2022]
3
Gallon J, Loomis E, Curry E, Martin N, Brody L, Garner I, Brown R, Flanagan JM. Chromatin accessibility changes at intergenic regions are associated with ovarian cancer drug resistance. Clin Epigenetics 2021;13:122. [PMID: 34090482 PMCID: PMC8180030 DOI: 10.1186/s13148-021-01105-6] [Citation(s) in RCA: 6] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/17/2021] [Accepted: 05/17/2021] [Indexed: 12/13/2022]  Open
4
Genomic Characterization of Cisplatin Response Uncovers Priming of Cisplatin-Induced Genes in a Resistant Cell Line. Int J Mol Sci 2021;22:ijms22115814. [PMID: 34071702 PMCID: PMC8198185 DOI: 10.3390/ijms22115814] [Citation(s) in RCA: 11] [Impact Index Per Article: 2.8] [Reference Citation Analysis] [Abstract] [Key Words] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/18/2021] [Revised: 05/26/2021] [Accepted: 05/26/2021] [Indexed: 11/16/2022]  Open
5
Tracking the cellular targets of platinum anticancer drugs: Current tools and emergent methods. Inorganica Chim Acta 2019. [DOI: 10.1016/j.ica.2019.118984] [Citation(s) in RCA: 18] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/20/2022]
6
Alhegaili AS, Ji Y, Sylvius N, Blades MJ, Karbaschi M, Tempest HG, Jones GDD, Cooke MS. Genome-Wide Adductomics Analysis Reveals Heterogeneity in the Induction and Loss of Cyclobutane Thymine Dimers across Both the Nuclear and Mitochondrial Genomes. Int J Mol Sci 2019;20:ijms20205112. [PMID: 31618917 PMCID: PMC6834194 DOI: 10.3390/ijms20205112] [Citation(s) in RCA: 10] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/24/2019] [Revised: 10/07/2019] [Accepted: 10/10/2019] [Indexed: 12/29/2022]  Open
7
Genome-wide mapping of nucleotide excision repair with XR-seq. Nat Protoc 2019;14:248-282. [PMID: 30552409 DOI: 10.1038/s41596-018-0093-7] [Citation(s) in RCA: 46] [Impact Index Per Article: 7.7] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/20/2022]
8
van Eijk P, Nandi SP, Yu S, Bennett M, Leadbitter M, Teng Y, Reed SH. Nucleosome remodeling at origins of global genome-nucleotide excision repair occurs at the boundaries of higher-order chromatin structure. Genome Res 2018;29:74-84. [PMID: 30552104 PMCID: PMC6314166 DOI: 10.1101/gr.237198.118] [Citation(s) in RCA: 10] [Impact Index Per Article: 1.4] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/16/2018] [Accepted: 11/07/2018] [Indexed: 11/24/2022]
9
Mao P, Brown AJ, Esaki S, Lockwood S, Poon GMK, Smerdon MJ, Roberts SA, Wyrick JJ. ETS transcription factors induce a unique UV damage signature that drives recurrent mutagenesis in melanoma. Nat Commun 2018;9:2626. [PMID: 29980679 PMCID: PMC6035183 DOI: 10.1038/s41467-018-05064-0] [Citation(s) in RCA: 97] [Impact Index Per Article: 13.9] [Reference Citation Analysis] [Abstract] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/19/2018] [Accepted: 06/07/2018] [Indexed: 11/12/2022]  Open
10
van Eijk P, Teng Y, Bennet MR, Evans KE, Powell JR, Webster RM, Reed SH. Integrated Microarray-based Tools for Detection of Genomic DNA Damage and Repair Mechanisms. Methods Mol Biol 2018;1672:77-99. [PMID: 29043618 DOI: 10.1007/978-1-4939-7306-4_7] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.1] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/14/2023]
11
Olinski R, Gackowski D, Cooke MS. Endogenously generated DNA nucleobase modifications source, and significance as possible biomarkers of malignant transformation risk, and role in anticancer therapy. Biochim Biophys Acta Rev Cancer 2017;1869:29-41. [PMID: 29128527 DOI: 10.1016/j.bbcan.2017.11.002] [Citation(s) in RCA: 12] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/16/2017] [Revised: 11/06/2017] [Accepted: 11/06/2017] [Indexed: 01/26/2023]
12
Liu X, Tian R, Liu D, Wang Z. Development of Sphere-Polymer Brush Hierarchical Nanostructure Substrates for Fabricating Microarrays with High Performance. ACS APPLIED MATERIALS & INTERFACES 2017;9:38101-38108. [PMID: 28990756 DOI: 10.1021/acsami.7b09505] [Citation(s) in RCA: 7] [Impact Index Per Article: 0.9] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/07/2023]
13
Dynamic maps of UV damage formation and repair for the human genome. Proc Natl Acad Sci U S A 2017;114:6758-6763. [PMID: 28607063 DOI: 10.1073/pnas.1706522114] [Citation(s) in RCA: 129] [Impact Index Per Article: 16.1] [Reference Citation Analysis] [Abstract] [Key Words] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/18/2022]  Open
14
Hu J, Adar S. The Cartography of UV-induced DNA Damage Formation and DNA Repair. Photochem Photobiol 2017;93:199-206. [PMID: 27861959 DOI: 10.1111/php.12668] [Citation(s) in RCA: 24] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/26/2016] [Accepted: 09/23/2016] [Indexed: 12/29/2022]
15
Nucleotide Excision Repair: From Neurodegeneration to Cancer. ADVANCES IN EXPERIMENTAL MEDICINE AND BIOLOGY 2017;1007:17-39. [PMID: 28840550 DOI: 10.1007/978-3-319-60733-7_2] [Citation(s) in RCA: 16] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 02/07/2023]
16
Mao P, Wyrick JJ, Roberts SA, Smerdon MJ. UV-Induced DNA Damage and Mutagenesis in Chromatin. Photochem Photobiol 2016;93:216-228. [PMID: 27716995 DOI: 10.1111/php.12646] [Citation(s) in RCA: 56] [Impact Index Per Article: 6.2] [Reference Citation Analysis] [Abstract] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/18/2016] [Accepted: 09/14/2016] [Indexed: 12/19/2022]
17
Shu X, Xiong X, Song J, He C, Yi C. Base-Resolution Analysis of Cisplatin-DNA Adducts at the Genome Scale. Angew Chem Int Ed Engl 2016;55:14246-14249. [PMID: 27736024 PMCID: PMC5131569 DOI: 10.1002/anie.201607380] [Citation(s) in RCA: 69] [Impact Index Per Article: 7.7] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/30/2016] [Revised: 09/17/2016] [Indexed: 11/05/2022]
18
Shu X, Xiong X, Song J, He C, Yi C. Base-Resolution Analysis of Cisplatin-DNA Adducts at the Genome Scale. Angew Chem Int Ed Engl 2016. [DOI: 10.1002/ange.201607380] [Citation(s) in RCA: 13] [Impact Index Per Article: 1.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/10/2022]
19
Mao P, Wyrick JJ. Emerging roles for histone modifications in DNA excision repair. FEMS Yeast Res 2016;16:fow090. [PMID: 27737893 DOI: 10.1093/femsyr/fow090] [Citation(s) in RCA: 23] [Impact Index Per Article: 2.6] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Accepted: 10/10/2016] [Indexed: 12/27/2022]  Open
20
Yu S, Evans K, van Eijk P, Bennett M, Webster RM, Leadbitter M, Teng Y, Waters R, Jackson SP, Reed SH. Global genome nucleotide excision repair is organized into domains that promote efficient DNA repair in chromatin. Genome Res 2016;26:1376-1387. [PMID: 27470111 PMCID: PMC5052058 DOI: 10.1101/gr.209106.116] [Citation(s) in RCA: 26] [Impact Index Per Article: 2.9] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/28/2016] [Accepted: 07/27/2016] [Indexed: 01/08/2023]
21
Cisplatin DNA damage and repair maps of the human genome at single-nucleotide resolution. Proc Natl Acad Sci U S A 2016;113:11507-11512. [PMID: 27688757 DOI: 10.1073/pnas.1614430113] [Citation(s) in RCA: 151] [Impact Index Per Article: 16.8] [Reference Citation Analysis] [Abstract] [Key Words] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/03/2023]  Open
22
Chromosomal landscape of UV damage formation and repair at single-nucleotide resolution. Proc Natl Acad Sci U S A 2016;113:9057-62. [PMID: 27457959 DOI: 10.1073/pnas.1606667113] [Citation(s) in RCA: 121] [Impact Index Per Article: 13.4] [Reference Citation Analysis] [Abstract] [Key Words] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/17/2023]  Open
23
Genome-wide kinetics of DNA excision repair in relation to chromatin state and mutagenesis. Proc Natl Acad Sci U S A 2016;113:E2124-33. [PMID: 27036006 DOI: 10.1073/pnas.1603388113] [Citation(s) in RCA: 144] [Impact Index Per Article: 16.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/18/2022]  Open
24
Yao MH, Yang J, Zhao DH, Xia RX, Jin RM, Zhao YD, Liu B. A facile method to in situ fabricate three dimensional gold nanoparticle micropatterns in a cell-resistant hydrogel. Photochem Photobiol Sci 2016;15:181-6. [PMID: 26787048 DOI: 10.1039/c5pp00426h] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.1] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
25
Chromatin dynamics after DNA damage: The legacy of the access-repair-restore model. DNA Repair (Amst) 2015;36:114-121. [PMID: 26429064 PMCID: PMC5113751 DOI: 10.1016/j.dnarep.2015.09.014] [Citation(s) in RCA: 102] [Impact Index Per Article: 10.2] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/24/2022]
26
Peyresaubes F, D'Amours A, Leduc F, Grégoire MC, Boissonneault G, Conconi A. Immuno-capture of UVDE generated 3'-OH ends at UV photoproducts. DNA Repair (Amst) 2015;36:156-161. [PMID: 26547444 DOI: 10.1016/j.dnarep.2015.09.019] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.1] [Reference Citation Analysis] [Abstract] [Key Words] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/31/2023]
27
Wyrick JJ, Roberts SA. Genomic approaches to DNA repair and mutagenesis. DNA Repair (Amst) 2015;36:146-155. [PMID: 26411877 DOI: 10.1016/j.dnarep.2015.09.018] [Citation(s) in RCA: 24] [Impact Index Per Article: 2.4] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/19/2022]
28
Transcription Blockage Leads to New Beginnings. Biomolecules 2015. [PMID: 26197343 PMCID: PMC4598766 DOI: 10.3390/biom5031600] [Citation(s) in RCA: 9] [Impact Index Per Article: 0.9] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/05/2022]  Open
29
Hu J, Adar S, Selby CP, Lieb JD, Sancar A. Genome-wide analysis of human global and transcription-coupled excision repair of UV damage at single-nucleotide resolution. Genes Dev 2015;29:948-60. [PMID: 25934506 PMCID: PMC4421983 DOI: 10.1101/gad.261271.115] [Citation(s) in RCA: 206] [Impact Index Per Article: 20.6] [Reference Citation Analysis] [Abstract] [Key Words] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/12/2022]
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