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 10.1016/j.ncrna.2024.03.010 |
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 |
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
Item availability restricted. |
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 |
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 |
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 |
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 |
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 |
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 |
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 |
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 |
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 |
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 |
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 |
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 |
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 |
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 |
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 |
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 |
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 |
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 |
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 |
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, 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 |
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 |