Cardiff University | Prifysgol Caerdydd ORCA
Online Research @ Cardiff 
WelshClear Cookie - decide language by browser settings

Browse by Current Cardiff authors

Number of items: 40.

Zuo, You, He, Jiaqian, Zhou, Zheng, Sun, Jingjing, Ouyang, Can, Huang, Hui, Wang, Yajuan, Liu, Hairong and Reed, Simon H. ORCID: 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

Newton, Matthew D., Losito, Marialucrezia, Smith, Quentin M., Parnandi, Nishita, Taylor, Benjamin J., Akcakaya, Pinar, Maresca, Marcello, van Eijk, Patrick ORCID:, Reed, Simon H. ORCID:, 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: 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

Yancoskie, Michelle N., Maritz, Corina, van Eijk, Patrick ORCID:, Reed, Simon H. ORCID: 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:, Reed, Simon H. ORCID:, 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:, Fellows, Mick D., Loiacono, Luisa, Nitsch, Roberto and Reed, Simon H. ORCID: 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:, 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:, Prior, Ian A., Brancale, Andrea ORCID:, Reed, Simon H. ORCID: 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:, 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: 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: 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:, Groll, Michael and Bochtler, Matthias ORCID: 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:, Teng, Yumin, Bennet, Mark R, Evans, Katie, Powell, James R, Webster, Richard and Reed, Simon ORCID: 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:, Bennett, Mark, Webster, Richard M., Leadbitter, Matthew, Teng, Yummin, Waters, Raymond, Jackson, Stephen P. and Reed, Simon H. ORCID: 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: and Reed, Simon ORCID: 2015. Histone modification and chromatin remodeling during NER. DNA Repair 36 , pp. 105-113. 10.1016/j.dnarep.2015.09.013

Menzies, Georgina ORCID:, Reed, Simon H. ORCID:, Brancale, Andrea ORCID: 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:, Waters, Raymond, Yu, Shirong, Kraehenbuehl, Rolf, Hartsuiker, Edgar and Reed, Simon H. ORCID: 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: 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: 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:, Reed, Simon Huw ORCID:, 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:, 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:, 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: 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: 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: and Reed, Simon Huw ORCID: 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: 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:, 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: 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: 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: 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:, 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: 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: 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: 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: 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: 2007. Saccharomyces cerevisiae Rad16 mediates UV dependent histone H3 acetylation required for efficient global genome nucleotide excision repair. [Technical Report]. EMBO Reports. Available at:

Reed, Simon Huw ORCID:, 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: 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: 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:, 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

This list was generated on Sun Jun 16 05:39:38 2024 BST.