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Number of items: 42.

Zuo, You, He, Jiaqian, Zhou, Zheng, Sun, Jingjing, Ouyang, Can, Huang, Hui, Wang, Yajuan, Liu, Hairong and Reed, Simon H. ORCID: https://orcid.org/0000-0002-4711-0560 2024. Long non-coding RNA LIP interacts with PARP-1 influencing the efficiency of base excision repair. Non-coding RNA Research 9 (3) , pp. 649-658. 10.1016/j.ncrna.2024.03.010
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Mackay, Hannah L., Stone, Helen R., Ronson, George E., Ellis, Katherine, Lanz, Alexander, Aghabi, Yara, Walker, Alexandra K., Starowicz, Katarzyna, Garvin, Alexander J., Van Eijk, Patrick ORCID: https://orcid.org/0000-0001-9549-555X, Koestler, Stefan A., Anthony, Elizabeth J., Piberger, Ann Liza, Chauhan, Anoop S., Conway-Thomas, Poppy, Vaitsiankova, Alina, Vijayendran, Sobana, Beesley, James F., Petermann, Eva, Brown, Eric J., Densham, Ruth M., Reed, Simon H. ORCID: https://orcid.org/0000-0002-4711-0560, Dobbs, Felix, Saponaro, Marco and Morris, Joanna R. 2024. USP50 suppresses alternative RecQ helicase use and deleterious DNA2 activity during replication. Nature Communications 15 , 8102. 10.1038/s41467-024-52250-4
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Klapwijk, Jan C., Del Rio Espinola, Alberto, Libertini, Silvana, Collin, Philippe, Fellows, Mick D., Jobling, Susan, Lynch, Antohny M., Martus, HansJoerg, Vickers, Catherine, Zeller, Andreas, Biasco, Luca, Brugman, Martijn H., Bushmann, Frederic D., Cathomen, Toni, Ertl, Hildegund C. J., Gabriel, Richard, Gao, Guangping, Jadlowsky, Julie K., Kimber, Ian, Lanz, Thomas A., Levine, Bruce L., Micklethwaite, Kenneth P., Onodera, Masafumi, Pizzurro, Daniella M., Reed, Simon ORCID: https://orcid.org/0000-0002-4711-0560, Rothe, Michael, Sabatino, Denise, Salk, Jesse J., Schambach, Axel, Themis, Michael and Yuan, Jing 2024. Improving the assessment of risk factors relevant to potential carcinogenicity of gene therapies: a consensus article. Human Gene Therapy 35 (15-16) , pp. 527-542. 10.1089/hum.2024.033
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Newton, Matthew D., Losito, Marialucrezia, Smith, Quentin M., Parnandi, Nishita, Taylor, Benjamin J., Akcakaya, Pinar, Maresca, Marcello, van Eijk, Patrick ORCID: https://orcid.org/0000-0001-9549-555X, Reed, Simon H. ORCID: https://orcid.org/0000-0002-4711-0560, Boulton, Simon J., King, Graeme A., Cuomo, Maria Emanuela and Rueda, David S. 2023. Negative DNA supercoiling induces genome-wide Cas9 off-target activity. Molecular Cell 83 (19) , 3533-3545.e5. 10.1016/j.molcel.2023.09.008
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Lynch, Anthony M, Zanoni, Thalita B, Salk, Jesse J, Martincorena, Inigo, Young, Robert R, Kucab, Jill, Valentine, Charles C, Yauk, Carole, Escobar, Patricia A, Witt, Kristine L, Frötschl, Roland, Reed, Simon H ORCID: https://orcid.org/0000-0002-4711-0560 and Ashford, Anne 2023. Next Generation Sequencing Workshop at the Royal Society of Medicine (London, May 2022): how genomics is on the path to modernizing genetic toxicology. Mutagenesis 10.1093/mutage/gead012
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Yancoskie, Michelle N., Maritz, Corina, van Eijk, Patrick ORCID: https://orcid.org/0000-0001-9549-555X, Reed, Simon H. ORCID: https://orcid.org/0000-0002-4711-0560 and Naegeli, Hanspeter 2023. To incise or not and where: SET-domain methyltransferases know. Trends in Biochemical Sciences 48 (4) , pp. 321-330. 10.1016/j.tibs.2022.10.003
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Murat, Pierre, Perez, Consuelo, Crisp, Alastair, van Eijk, Patrick ORCID: https://orcid.org/0000-0001-9549-555X, Reed, Simon H. ORCID: https://orcid.org/0000-0002-4711-0560, Guilbaud, Guillaume and Sale, Julian E. 2022. DNA replication initiation shapes the mutational landscape and expression of the human genome. Science Advances 8 (45) 10.1126/sciadv.add3686
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Dobbs, Felix M., van Eijk, Patrick ORCID: https://orcid.org/0000-0001-9549-555X, Fellows, Mick D., Loiacono, Luisa, Nitsch, Roberto and Reed, Simon H. ORCID: https://orcid.org/0000-0002-4711-0560 2022. Precision digital mapping of endogenous and induced genomic DNA breaks by INDUCE-seq. Nature Communications 13 , 3989. 10.1038/s41467-022-31702-9
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Fletcher, C. E., Deng, L., Orafidiya, F., Yuan, W., Lorentzen, M. P. G. S., Cyran, O. W., Varela-Carver, A., Constantin, T. A., Leach, D. A., Dobbs, F. M., Figueiredo, I., Gurel, B., Parkes, E., Bogdan, D., Pereira, R. R., Zhao, S. G., Neeb, A., Issa, F., Hester, J., Kudo, H., Liu, Y., Philippou, Y., Bristow, R., Knudsen, K., Bryant, R. J., Feng, F. Y., Reed, S. H. ORCID: https://orcid.org/0000-0002-4711-0560, Mills, I. G., de Bono, J. and Bevan, C. L. 2022. A non-coding RNA balancing act: miR-346-induced DNA damage is limited by the long non-coding RNA NORAD in prostate cancer. Molecular Cancer 21 , 82. 10.1186/s12943-022-01540-w
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Menzies, Georgina ORCID: https://orcid.org/0000-0002-6600-6507, Prior, Ian A., Brancale, Andrea ORCID: https://orcid.org/0000-0002-9728-3419, Reed, Simon H. ORCID: https://orcid.org/0000-0002-4711-0560 and Lewis, Paul D. 2021. Carcinogen-induced DNA structural distortion differences in the RAS gene isoforms; the importance of local sequence. BMC Chemistry 15 , 51. 10.1186/s13065-021-00777-8
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Wang, Dan, Zhou, Zheng, Wu, Erzhong, Ouyang, Can, Wei, Guifeng, Wang, Yunfei, He, Dandan, Cui, Ya, Zhang, Dongdong, Chen, Xiaomin, Reed, Simon H. ORCID: https://orcid.org/0000-0002-4711-0560, Luo, Jianjun and Chen, Runsheng 2020. LRIK interacts with the Ku70–Ku80 heterodimer enhancing the efficiency of NHEJ repair. Cell Death and Differentiation 27 , pp. 3337-3353. 10.1038/s41418-020-0581-5

van Eijk, Patrick, Nandi, Shuvro Prokash, Yu, Shirong, Bennett, Mark, Leadbitter, Matthew, Teng, Yumin and Reed, Simon H. ORCID: https://orcid.org/0000-0002-4711-0560 2018. Nucleosome remodeling at origins of global genome?nucleotide excision repair occurs at the boundaries of higher-order chromatin structure. Genome Research 29 (1) , pp. 74-84. 10.1101/gr.237198.118
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Wang, Dan, Yang, Huali, Zhou, Zheng, Zhao, Man, Chen, Runsheng and Reed, Simon ORCID: https://orcid.org/0000-0002-4711-0560 2018. XPF plays an indispensable role in relieving silver nanoparticle induced DNA damage stress in human cells. Toxicology Letters 288 , pp. 44-54. 10.1016/j.toxlet.2018.02.022

Piasecka, Anna, Czapinska, Honorata, Vielberg, Marie-Theres, Szczepanowski, Roman H., Kiefersauer, Reiner, Reed, Simon ORCID: https://orcid.org/0000-0002-4711-0560, Groll, Michael and Bochtler, Matthias ORCID: https://orcid.org/0000-0001-7884-4463 2018. The Y. bercovieri Anbu crystal structure sheds light on the evolution of highly (pseudo)symmetric multimers. Journal of Molecular Biology 430 (5) , pp. 611-627. 10.1016/j.jmb.2017.11.016
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Van Eijk, Patrick ORCID: https://orcid.org/0000-0001-9549-555X, Teng, Yumin, Bennet, Mark R, Evans, Katie, Powell, James R, Webster, Richard and Reed, Simon ORCID: https://orcid.org/0000-0002-4711-0560 2017. Integrated microarray-based tools for detection of genomic DNA damage and repair mechanisms. Muzi-Falconi, Marco and Brown, Grant W, eds. Genome Instability. Methods in Molecular Biology, Vol. 1672. New York, NY: Humana Press, p. 77. (10.1007/978-1-4939-7306-4_7)

Yu, Shirong, Evans, Katie, Van Eijk, Patrick ORCID: https://orcid.org/0000-0001-9549-555X, Bennett, Mark, Webster, Richard M., Leadbitter, Matthew, Teng, Yummin, Waters, Raymond, Jackson, Stephen P. and Reed, Simon H. ORCID: https://orcid.org/0000-0002-4711-0560 2016. Global genome nucleotide excision repair is organized into domains that promote efficient DNA repair in chromatin. Genome Research 26 , pp. 1376-1387. 10.1101/gr.209106.116
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Waters, Raymond, van Eijk, Patrick ORCID: https://orcid.org/0000-0001-9549-555X and Reed, Simon ORCID: https://orcid.org/0000-0002-4711-0560 2015. Histone modification and chromatin remodeling during NER. DNA Repair 36 , pp. 105-113. 10.1016/j.dnarep.2015.09.013

Menzies, Georgina ORCID: https://orcid.org/0000-0002-6600-6507, Reed, Simon H. ORCID: https://orcid.org/0000-0002-4711-0560, Brancale, Andrea ORCID: https://orcid.org/0000-0002-9728-3419 and Lewis, Paul D. 2015. Base damage, local sequence context and TP53 mutation hotspots: a molecular dynamics study of benzo[a]pyrene induced DNA distortion and mutability. Nucleic Acids Research 43 (19) , pp. 9133-9146. 10.1093/nar/gkv910
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Zhou, Zheng, Humphryes, Neil, Van Eijk, Patrick ORCID: https://orcid.org/0000-0001-9549-555X, Waters, Raymond, Yu, Shirong, Kraehenbuehl, Rolf, Hartsuiker, Edgar and Reed, Simon H. ORCID: https://orcid.org/0000-0002-4711-0560 2015. UV induced ubiquitination of the yeast Rad4–Rad23 complex promotes survival by regulating cellular dNTP pools. Nucleic Acids Research 43 (15) , pp. 7360-7370. 10.1093/nar/gkv680
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Bennett, Mark Richard, Evans, Katie Ellen, Yu, Shirong, Teng, Yumin, Webster, Richard, Powell, James, Waters, Raymond and Reed, Simon Huw ORCID: https://orcid.org/0000-0002-4711-0560 2015. Sandcastle: software for revealing latent information in multiple experimental ChIP-chip datasets via a novel normalisation procedure. Scientific Reports 5 , 13395. 10.1038/srep13395
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Powell, James Rees, Bennett, Mark Richard, Evans, Katie Ellen, Yu, Shirong, Webster, Richard Michael, Waters, Raymond, Skinner, Nigel and Reed, Simon Huw ORCID: https://orcid.org/0000-0002-4711-0560 2015. 3D-DIP-Chip: a microarray-based method to measure genomic DNA damage. Scientific Reports 5 , 7975. 10.1038/srep07975
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Colmont, Chantal Sophie, Ben Ketah, Antisar, Errington, Rachel Jane ORCID: https://orcid.org/0000-0002-8016-4376, Reed, Simon Huw ORCID: https://orcid.org/0000-0002-4711-0560, Udey, Mark C. and Patel, Girish Khandubai 2013. Human basal cell carcinoma tumor-initiating cells are resistant to etoposide [Letter]. Journal of Investigative Dermatology 134 (3) , pp. 867-870. 10.1038/jid.2013.377

Yu, Yachuan, Deng, Yanbo, Reed, Simon Huw ORCID: https://orcid.org/0000-0002-4711-0560, Millar, Catherine B. and Waters, Raymond 2013. Histone variant Htz1 promotes histone H3 acetylation to enhance nucleotide excision repair in Htz1 nucleosomes. Nucleic Acids Research 41 (19) , pp. 9006-9019. 10.1093/nar/gkt688
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Colmont, Chantal Sophie, Ben Ketah, Antisar, Reed, Simon Huw ORCID: https://orcid.org/0000-0002-4711-0560, Hawk, Nga V., Telford, William G., Ohyama, Manabu, Udeye, Mark C., Yee, Carole L., Vogel, Jonathan C. and Patel, Girish Khandubhai 2013. CD200-expressing human basal cell carcinoma cells initiate tumor growth. Proceedings of the National Academy of Sciences of the United States of America 110 (4) , pp. 1434-1439. 10.1073/pnas.1211655110

Powell, J, Bennett, M, Waters, Raymond, Skinner, N and Reed, Simon ORCID: https://orcid.org/0000-0002-4711-0560 2013. Functional genome-wide analysis: a technical review, its developments and its relevance to cancer research. Recent Patents on DNA and Gene Sequences 7 (2) , pp. 157-166. 10.2174/18722156113079990020

Waters, Raymond, Evans, Katie Ellen, Bennett, Mark Richard, Yu, Shirong and Reed, Simon Huw ORCID: https://orcid.org/0000-0002-4711-0560 2012. Nucleotide excision repair in cellular chromatin: studies with yeast from nucleotide to gene to genome. International Journal of Molecular Sciences 13 (9) , pp. 11141-11164. 10.3390/ijms130911141
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Waters, Raymond, Teng, Yumin, Bennett, Mark Richard, Evans, Katie Ellen, Zhuang-Jackson, Huayun, Higgs, Andy and Reed, Simon Huw ORCID: https://orcid.org/0000-0002-4711-0560 2012. Emerging technologies in genotoxicity testing: measuring DNA damage in entire genomes at high resolution [Abstract]. Mutagenesis 27 (1) , p. 112. 10.1093/mutage/ger068

Bennett, Mark Richard, Evans, Katie Ellen, Teng, Yumin, Leadbitter, Matthew, Yu, Shirong, Waters, Raymond, Giles, Peter James ORCID: https://orcid.org/0000-0003-3143-6854 and Reed, Simon Huw ORCID: https://orcid.org/0000-0002-4711-0560 2012. Bioinformatic analyses of genome wide nucleotide excision repair datasets in Saccharomyces cerevisiae [Abstract]. Mutagenesis 27 (1) , p. 121. 10.1093/mutage/ger068

Silver, Hannah R., Nissley, Jared A., Reed, Simon Huw ORCID: https://orcid.org/0000-0002-4711-0560, Hou, Ya-Ming and Johnson, Erica S. 2011. A role for SUMO in nucleotide excision repair. DNA Repair 10 (12) , pp. 1243-1251. 10.1016/j.dnarep.2011.09.013

Yu, Shirong, Teng, Yumin, Waters, Raymond and Reed, Simon Huw ORCID: https://orcid.org/0000-0002-4711-0560 2011. How chromatin is remodelled during DNA repair of UV-induced DNA damage in Saccharomyces cerevisiae. PLoS Genetics 7 (6) , e1002124. 10.1371/journal.pgen.1002124
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Teng, Yumin, Bennett, Mark Richard, Evans, Katie Ellen, Zhuang Jackson, Huayun, Higgs, Andy, Reed, Simon Huw ORCID: https://orcid.org/0000-0002-4711-0560 and Waters, Raymond 2011. A novel method for the genome-wide high resolution analysis of DNA damage. Nucleic Acids Research 39 (2) , e10. 10.1093/nar/gkq1036

Reed, Simon Huw ORCID: https://orcid.org/0000-0002-4711-0560 2011. Nucleotide excision repair in chromatin: damage removal at the drop of a HAT. DNA Repair 10 (7) , pp. 734-742. 10.1016/j.dnarep.2011.04.029

Irizar, Miren Agurtzane, Yu, Yachuan, Reed, Simon Huw ORCID: https://orcid.org/0000-0002-4711-0560, Louis, Edward J. and Waters, Raymond 2010. Silenced yeast chromatin is maintained by Sir2 in preference to permitting histone acetylations for efficient NER. Nucleic Acids Research 38 (14) , pp. 4675-4686. 10.1093/nar/gkq242
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Yu, Shirong, Smirnova, Julia, Friedberg, Errol C., Stillman, Bruce, Akiyama, Masahiro, Owen-Hughes, Tom, Waters, Raymond and Reed, Simon Huw ORCID: https://orcid.org/0000-0002-4711-0560 2009. ABF1-binding sites promote efficient global genome nucleotide excision repair. Journal of Biological Chemistry 284 (2) , pp. 966-973. 10.1074/jbc.M806830200

Teng, Yumin, Yu, Shirong, Reed, Simon Huw ORCID: https://orcid.org/0000-0002-4711-0560 and Waters, Raymond 2009. Lux ex tenebris: Nucleotide resolution DNA repair and nucleosome mapping. Methods 48 (1) , pp. 23-34. 10.1016/j.ymeth.2009.02.017

Waters, Raymond, Teng, Yumin, Yu, Yachuan, Yu, Shirong and Reed, Simon Huw ORCID: https://orcid.org/0000-0002-4711-0560 2009. Tilting at windmills? The nucleotide excision repair of chromosomal DNA. DNA Repair 8 (2) , pp. 146-152. 10.1016/j.dnarep.2008.11.001

Teng, Yumin, Liu, Hairong, Gill, Hefin, Yu, Yachuan, Waters, Raymond and Reed, Simon Huw ORCID: https://orcid.org/0000-0002-4711-0560 2008. Saccharomyces cerevisiae Rad16 mediates ultraviolet-dependent histone H3 acetylation required for efficient global genome nucleotide-excision repair. EMBO Reports 9 (1) , pp. 97-102. 10.1038/sj.embor.7401112

Teng, Yumin, Liu, Hairong, Gill, Hefin, Yu, Yachuan, Waters, Raymond and Reed, Simon Huw ORCID: https://orcid.org/0000-0002-4711-0560 2007. Saccharomyces cerevisiae Rad16 mediates UV dependent histone H3 acetylation required for efficient global genome nucleotide excision repair. [Technical Report]. EMBO Reports. Available at: http://www.ncbi.nlm.nih.gov/sites/entrez?cmd=Retri...

Reed, Simon Huw ORCID: https://orcid.org/0000-0002-4711-0560, Waters, R., Yu, S. and Gillette, T. 2006. Distinct functions of the ubiquitin-proteasome pathway influence nucleotide excision repair. Embo J 25 , pp. 2529-2538. 10.1038/sj.emboj.7601120

Yu, Yachuan, Teng, Yumin, Liu, Hairong, Reed, Simon Huw ORCID: https://orcid.org/0000-0002-4711-0560 and Waters, Raymond 2005. UV irradiation stimulates histone acetylation and chromatin remodeling at a repressed yeast locus. Proceedings of the National Academy of Sciences 102 (24) , pp. 8650-8655. 10.1073/pnas.0501458102

Yu, Shirong, Owen-Hughes, Tom, Friedberg, Errol C., Waters, Raymond and Reed, Simon Huw ORCID: https://orcid.org/0000-0002-4711-0560 2004. The yeast Rad7/Rad16/Abf1 complex generates superhelical torsion in DNA that is required for nucleotide excision repair. DNA repair 3 (3) , pp. 277-287. 10.1016/j.dnarep.2003.11.004

Gillette, Thomas G., Huang, Wenya, Russell, Steven Jon, Reed, Simon Huw ORCID: https://orcid.org/0000-0002-4711-0560, Johnston, Stephen Albert and Friedberg, Errol C. 2001. The 19S complex of the proteasome regulates nucleotide excision repair in yeast. Genes & Development 15 (12) , pp. 1528-1539. 10.1101/gad.869601
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This list was generated on Thu Oct 30 11:33:40 2025 GMT.


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