Andy Lynch

2024

Genomic evolution shapes prostate cancer disease type

CRUK-ICGC Prostate Group, Woodcock, D. J., Sahli, A., Teslo, R., Bhandari, V., Gruber, A. J., Ziubroniewicz, A., Gundem, G., Xu, Y., Butler, A., Anokian, E., Pope, B. J., Jung, C.-H., Tarabichi, M., Dentro, S. C., Farmery, J. H. R., Van Loo, P., Warren, A. Y., Gnanapragasam, V. & Hamdy, F. C. & 16 others, Bova, G. S., Foster, C. S., Neal, D. E., Lu, Y.-J., Kote-Jarai, Z., Bristow, R. G., Boutros, P. C., Costello, A. J., Corcoran, N. M., Hovens, C. M., Massie, C. E., Lynch, A. G., Brewer, D. S., Eeles, R. A., Cooper, C. S. & Wedge, D. C., 13 Mar 2024, (E-pub ahead of print) In: Cell Genomics. 4, 13, 31 p., 100511.

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Predominance of multidrug-resistant bacteria causing urinary tract infections among symptomatic patients in East Africa: a call for action

Maldonado-Barragán, A., Mshana, S. E., Keenan, K., Ke, X., Gillespie, S. H., Stelling, J., Maina, J., Bazira, J., Muhwezi, I., Mushi, M. F., Green, D. L., Kesby, M., Lynch, A. G., Sabiiti, W., Sloan, D. J., Sandeman, A., Kiiru, J., Asiimwe, B. & Holden, M. T. G., Feb 2024, In: JAC-Antimicrobial Resistance. 6, 1, 11 p., dlae019.

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Prostate cancer detection through unbiased capture of methylated cell-free DNA

Lleshi, E., Milne-Clark, T., Lee Yu, H., Martin, H. W., Hanson, R., Lach, R., Rossi, S. H., Riediger, A. L., Görtz, M., Sültmann, H., Flewitt, A., Lynch, A. G., Gnanapragasam, V. J., Massie, C. E. & Dev, H. S., 20 Jun 2024, (E-pub ahead of print) In: iScience. 27, 7, 17 p., 110330.

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2023

The role of multidimensional poverty in antibiotic misuse: a mixed-methods study of self-medication and non-adherence in Kenya, Tanzania, and Uganda

Green, D. L., Keenan, K., Fredricks, K. J., Huque, S. I., Mushi, M. F., Kansiime, C., Asiimwe, B., Kiiru, J., Mshana, S. E., Neema, S., Mwanga, J. R., Kesby, M., Lynch, A. G., Worthington, H., Olamijuwon, E., Abed Al Ahad, M., Aduda, A., Njeru, J. M., Mmbaga, B. T. & Bazira, J. & 14 others, Sandeman, A., Stelling, J., Gillespie, S. H., Kibiki, G., Sabiiti, W., Sloan, D. J., Holden, M. T. G., Smith, V. A., Decano, A. G., Maldonado-Barragán, A., Aanensen, D., Ntinginya, N. E., Elliott, A. & Clarkson, M., 1 Jan 2023, In: The Lancet Global Health. 11, 1, p. e59-e68 10 p.

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Unravelling patient pathways in the context of antibacterial resistance in East Africa

HATUA Consortium, Keenan, K., Fredricks, K. J., Al Ahad, M. A., Neema, S., Mwanga, J. R., Kesby, M., Mushi, M. F., Aduda, A., Green, D. L., Lynch, A. G., Huque, S. I., Mmbaga, B. T., Worthington, H., Kansiime, C., Olamijuwon, E., Ntinginya, N. E., Loza, O., Bazira, J. & Maldonado-Barragán, A. & 15 others, Smith, V., Decano, A. G., Njeru, J. M., Sandeman, A., Stelling, J., Elliott, A., Aanensen, D., Gillespie, S. H., Kibiki, G., Sabiiti, W., Sloan, D. J., Asiimwe, B. B., Kiiru, J., Mshana, S. E. & Holden, M. T. G., 19 Jun 2023, In: BMC Infectious Diseases. 23, 1, 12 p., 414.

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2022

Identification of plasma proteins associated with oesophageal cancer chemotherapeutic treatment outcomes using SWATH-MS

Guo, N., Minas, G., Synowsky, S. A., Dunne, M. R., Ahmed, H., McShane, R., Bhardwaj, A., Donlon, N. E., Lorton, C., O'Sullivan, J., Reynolds, J. V., Caie, P. D., Shirran, S. L., Lynch, A., Stewart, A. J. & Arya, S., 30 Aug 2022, In: Journal of Proteomics. 266, 11 p., 104684.

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Low-cost and clinically applicable copy number profiling using repeat DNA

Abujudeh, S., Zeki, S., van Lanshot, M., Pusang, M., Weaver, J., li, X., Noorani, A., Metz, A., Bornschein, J., Bower, L., Miremedi, A., Fitzgerald, R., Morrissey, E. & Lynch, A., 17 Aug 2022, In: BMC Genomics. 23, 599.

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Microbiomes of urine and the prostate are linked to human prostate cancer risk groups

Hurst, R., Meader, E., Gihawi, A., Rallapalli, G., Clark, J., Kay, G. L., Webb, M., Manley, K., Curley, H., Walker, H., Kumar, R., Schmidt, K., Crossman, L., Eeles, R. A., Wedge, D. C., Lynch, A. G., Massie, C. E., CRUK-ICGC Prostate Group, Yazbek-Hanna, M. & Rochester, M. & 8 others, Mills, R. D., Mithen, R. F., Traka, M. H., Ball, R. Y., O'Grady, J., Brewer, D. S., Wain, J. & Cooper, C. S., 1 Aug 2022, In: European Urology Oncology. 5, 4, p. 412-419 8 p.

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Rare germline variants are associated with rapid biochemical recurrence after radical prostate cancer treatment: a PPCG study

Burns, D., Anokiana, E., Saunders, E. J., Bristow, R. G., Fraser, M., Reimand, J., Schlomm, T., Sauter, G., Brors, B., Korbeli, J., Weischenfeldt, J., Waszak, S. M., Corcoran, N. M., Jung, C.-H., Pope, B. J., Hovens, C. M., Cancel-Tassin, G., Cussenot, O., Loda, M. & Sander, C. & 16 others, Hayes, V. M., Sorensen, K. D., Lu, Y.-J., Hamdy, F. C., Foster, C. S., Gnanapragasam, V., Butler, A., Lynch, A., Massie, C. E., CR-UK/Prostate Cancer UK, ICGC, The PPCG, Woodcock, D. J., Cooper, C. S., Wedge, D. C., Brewer, D. S., Kote-Jarai, Z. & Eeles, R., 1 Aug 2022, In: European Urology. 82, 2, p. 201-211 11 p.

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The architecture of clonal expansions in morphologically normal tissue from cancerous and non-cancerous prostates

Buhigas, C., Warren, A. Y., Leung, W.-K., Whitaker, H. C., Luxton, H. J., Hawkins, S., Kay, J., Butler, A., Xu, Y., Woodcock, D., Merson, S., Frame, F. M., Sahli, A., Abascal, F., CRUK-ICGC Prostate Group, Martincorena, I., Bova, G. S., Foster, C. S., Campbell, P. & Maitland, N. & 7 others, Neal, D. E., Massie, C. E., Lynch, A., Eeles, R. A., Cooper, C. S., Wedge, D. C. & Brewer, D. S., 22 Sept 2022, In: Molecular Cancer. 21, 16 p., 183.

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2021

CamGFR v2: a new model for estimating the glomerular filtration rate from standardized or non-standardized creatinine in patients with cancer

Williams, E. H., Flint, T. R., Connell, C. M., Giglio, D., Lee, H., Ha, T., Gablenz, E., Bird, N. J., Weaver, J. M. J., Potts, H., Whitley, C. T., Bookman, M. A., Lynch, A. G., Meyer, H. V., Tavaré, S. & Janowitz, T., Mar 2021, In: Clinical Cancer Research. 27, 5

Research output: Contribution to journal › Article › peer-review

Protocol for an interdisciplinary cross-sectional study investigating the social, biological and community-level drivers of antimicrobial resistance (AMR): Holistic Approach to Unravelling Antibiotic Resistance in East Africa (HATUA)

Asiimwe, B. B., Kiiru, J., Mshana, S. E., Neema, S., Keenan, K., Kesby, M., Mwanga, J. R., Sloan, D. J., Mmbaga, B. T., Smith, V. A., Gillespie, S. H., Lynch, A. G., Sandeman, A., Stelling, J., Elliott, A., Aanensen, D. M., Kibiki, G. E., Sabiiti, W., Holden, M. T. G. & HATUA Consortium, Mar 2021, In: BMJ Open. 11, 3, 10 p., e041418.

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Resolving the immune landscape of human prostate at a single-cell level in health and cancer

Tuong, Z. K., Loudon, K. W., Berry, B., Richoz, N., Jones, J., Tan, X., Nguyen, Q., George, A., Hori, S., Field, S., Lynch, A. G., Kania, K., Coupland, P., Babbage, A., Grenfell, R., Barrett, T., Warren, A. Y., Gnanapragasam, V., Massie, C. & Clatworthy, M. R., 21 Dec 2021, In: Cell Reports. 37, 12, 24 p., 110132.

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2020

Analyses of non-coding somatic drivers in 2,658 cancer whole genomes

PCAWG Drivers and Functional Interpretation Working Group, PCAWG Structural Variation Working Group & PCAWG Consortium, 6 Feb 2020, In: Nature. 578, 7793, p. 102-111 10 p.

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Comprehensive analysis of chromothripsis in 2,658 human cancers using whole-genome sequencing

Cortés-Ciriano, I., Lee, J.J.-K., Xi, R., Jain, D., Jung, Y. L., Yang, L., Gordenin, D., Klimczak, L. J., Zhang, C.-Z., Pellman, D. S., PCAWG Structural Variation Working Group, Park, P. J. & PCAWG Consortium, Mar 2020, In: Nature Genetics. 52, 3, p. 331-341

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Different laterality indexes are poorly correlated with one another but consistently show the tendency of males and females to be more left- and right- lateralized, respectively

Castillo, C. B., Lynch, A. G. & Paracchini, S., 15 Apr 2020, In: Royal Society Open Science. 7, 4, 14 p., 191700.

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Disruption of chromatin folding domains by somatic genomic rearrangements in human cancer

Akdemir, K. C., Le, V. T., Chandran, S., Li, Y., Verhaak, R. G., Beroukhim, R., Campbell, P. J., Chin, L., Dixon, J. R., Futreal, P. A., PCAWG Structural Variation Working Group & PCAWG Consortium, Mar 2020, In: Nature Genetics. 52, 3, p. 294-305

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Genomic footprints of activated telomere maintenance mechanisms in cancer

Sieverling, L., Hong, C., Koser, S. D., Ginsbach, P., Kleinheinz, K., Hutter, B., Braun, D. M., Cortés-Ciriano, I., Xi, R., Kabbe, R., Park, P. J., Eils, R., Schlesner, M., PCAWG Structural Variation Working Group, Brors, B., Rippe, K., Jones, D. T. W., Feuerbach, L. & Lynch, A. G., 5 Feb 2020, In: Nature Communications. 11, 13 p., 733 .

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High-coverage whole-genome analysis of 1220 cancers reveals hundreds of genes deregulated by rearrangement-mediated cis-regulatory alterations

Zhang, Y., Chen, F., Fonseca, N. A., He, Y., Fujita, M., Nakagawa, H., Zhang, Z., PCAWG Transcriptome Working Group, PCAWG Structural Variation Working Group, Creighton, C. J. & PCAWG Consortium, 5 Feb 2020, In: Nature Communications. 11, 14 p., 736.

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Pan-cancer analysis of whole genomes

The ICGC/TCGA Pan-Cancer Analysis of Whole Genomes Consortium, 6 Feb 2020, In: Nature. 578, 7793, p. 82-93 12 p.

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Pan-cancer analysis of whole genomes identifies driver rearrangements promoted by LINE-1 retrotransposition

PCAWG Structural Variation Working Group & PCAWG Consortium, Mar 2020, In: Nature Genetics. 52, 3, p. 306-319

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Patterns of somatic structural variation in human cancer genomes

Li, Y., Roberts, N. D., Wala, J. A., Shapira, O., Schumacher, S. E., Kumar, K., Khurana, E., Waszak, S., Korbel, J. O., Haber, J. E., Imielinski, M., PCAWG Structural Variation Working Group, Weischenfeldt, J., Beroukhim, R., Campbell, P. J. & PCAWG Consortium, 6 Feb 2020, In: Nature. 578, 7793, p. 112-121 10 p.

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Retrospective evaluation of whole exome and genome mutation calls in 746 cancer samples

PCAWG Consortium, MC3 Working Group, PCAWG novel somatic mutation calling methods working group, Bailey, M. H., Meyerson, W. U., Dursi, L. J., Wang, L.-B., Dong, G., Liang, W.-W., Weerasinghe, A., Li, S., Li, Y., Kelso, S., Saksena, G., Ellrott, K., Wendl, M. C., Wheeler, D. A., Getz, G., Simpson, J. T. & Gerstein, M. B. & 1 others, Ding, L., 21 Sept 2020, In: Nature Communications. 11, 27 p., 4748 .

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Sex differences in oncogenic mutational processes

Li, C. H., Prokopec, S. D., Sun, R. X., Yousif, F., Schmitz, N., PCAWG Tumour Subtypes and Clinical Translation, Boutros, P. C. & PCAWG Consortium, 28 Aug 2020, In: Nature Communications. 11, 24 p., 4330 .

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Whole-genome sequencing of a sporadic primary immunodeficiency cohort

Primary Immunodeficiency Consortium for the NIHR Bioresource & Lynch, A. G., 6 May 2020, (E-pub ahead of print) In: Nature.

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2019

Deciphering the genomic, epigenomic and transcriptomic landscapes of pre-invasive lung cancer lesions

Texeira, V. H., Pipinikas, C. P., Pennycuick, A., Lee-Six, H., Chandrasekharan, D., Beane, J., Morris, T. J., Karpathakis, A., Feber, A., Breeze, C. E., Ntolios, P., Hynds, R. E., Falzon, M., Capitanio, A., Carroll, B., Durrenberger, P. F., Hardavella, G., Brown, J. M., Lynch, A. G. & Farmery, H. & 12 others, Paul, D. S., Chambers, R. C., McGranahan, N., Navani, N., Thakrar, R. M., Swanton, C., Beck, S., George, P. J., Spira, A., Campbell, P. J., Thirwell, C. & Janes, S. M., Mar 2019, In: Nature Medicine. 25, 3, p. 517-525 9 p.

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Multicenter validation of the CamGFR model for estimated glomerular filtration rate

Williams, E. H., Connell, C. M., Weaver, J. M. J., Beh, I., Potts, H., Whitley, C. T., Bird, N., Al-Sayed, T., Fehr, M., Cathomas, R., Bertelli, G., Quinton, A., Lewis, P., Shamash, J., Wilson, P., Dooley, M., Poole, S., Mark, P. B., Bookman, M. & Earl, H. & 4 others, Jodrell, D., Tavaré, S., Lynch, A. & Janowitz, T., Dec 2019, In: JNCI Cancer Spectrum. 3, 4, 4 p., pkz068.

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2018

DESNT: a poor prognosis category of human prostate cancer

Luca, B.-A., Brewer, D. S., Edwards, D. R., Edwards, S., Whitaker, H. C., Merson, S., Dennis, N., Cooper, R. A., Hazell, S., Warren, A. Y., Eeles, R., Lynch, A. G., Ross-Adams, H., Lamb, A. D., Neal, D. E., Sethia, K., Mills, R. D., Ball, R. Y., Curley, H. & Clark, J. & 2 others, Moulton, V. & Cooper, C. S., Dec 2018, In: European Urology Focus. 4, 6, p. 842-850 9 p.

Research output: Contribution to journal › Article › peer-review

Open Access

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Sequencing of prostate cancers identifies new cancer genes, routes of progression and drug targets

Wedge, D. C., Gundem, G., Mitchell, T., Woodstock, D. J., Martincorena, I., Ghori, M., Zamora, J., Butler, A., Whitaker, H., Kote-Jarai, Z., Alexandrov, L. B., Van Loo, P., Massie, C. E., Dentro, S., Warren, A. Y., Verrill, C., Berney, D. M., Dennis, N., Merson, S. & Hawkins, S. & 68 others, Howat, W., Lu, Y.-J., Lambert, A., Kay, J., Kremeyer, B., Karaszi, K., Camacho, N., Luxton, H., Marsden, L., Edwards, S., Matthews, L., Bo, V., Leongamornlert, D., McLaren, S., Ng, A., Yu, Y., Zhang, H., Dadaev, T., Thomas, S., Easton, D. F., Ahmed, M., Bancroft, E., Fisher, C., Livni, N., Nicol, D., Tavaré, S., Gill, P., Greenman, C., Khoo, V., Van As, N., Kumar, P., Ogden, C., Cahill, D., Thompson, A., Mayer, E., Rowe, E., Dudderidge, T., Gnanapragasam, V., Shah, N. C., Raine, K., Jones, D., Menzies, A., Stebbings, L., Teague, J., Hazell, S., Corbishley, C., CamCaP Study Group, de Bono, J., Attard, G., Isaacs, W., Visakorpi, T., Fraser, M., Boutros, P. C., Bristow, R. G., Workman, P., Sander, C., The TCGA Consortium, Hamdy, F. C., Futreal, A., McDermott, U., Al-Lazikani, B., Lynch, A. G., Bova, G. S., Foster, C. S., Brewer, D. S., Neal, D. E., Cooper, C. S. & Eeles, R. A., May 2018, In: Nature Genetics. 50, 5, p. 682-692 16 p.

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Telomerecat: a ploidy-agnostic method for estimating telomere length from whole genome sequencing data

Farmery, J., Smith, M., NIHR BioResource - Rare Diseases & Lynch, A., 22 Jan 2018, In: Scientific Reports. 8, 17 p., 1300.

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Timing the landmark events in the evolution of clear cell renal cell cancer: TRACERx renal

Mitchell, T. J., Turajlic, S., Rowan, A., Nicol, D., Farmery, J. H. R., O’Brien, T., Martincorena, I., Tarpey, P., Angelopoulos, N., Yates, L. R., Butler, A. P., Raine, K., Stewart, G. D., Challacombe, B., Fernando, A., Lopez, J. I., Hazell, S., Chandra, A., Chowdhury, S. & Rudman, S. & 27 others, Soultati, A., Stamp, G., Fotiadis, N., Pickering, L., Au, L., Spain, L., Lynch, J., Stares, M., Teague, J., Maura, F., Wedge, D. C., Horswell, S., Chambers, T., Litchfield, K., Xu, H., Stewart, A., Elaidi, R., Oudard, S., McGranahan, N., Csabai, I., Gore, M., Futreal, P. A., Larkin, J., Lynch, A. G., Szallasi, Z., Swanton, C. & Campbell, P. J., 19 Apr 2018, In: Cell. 173, 3, p. 611-623 13 p., e17.

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2017

A comparative analysis of whole genome sequencing of esophageal adenocarcinoma pre- and post-chemotherapy

Noorani, A., Bornschein, J., Lynch, A. G., Secrier, M., Achilleos, A., Eldridge, M., Bower, L., Weaver, J. M. J., Crawte, J., Ong, C.-A., Shannon, N., MacRae, S., Grehan, N., Nutzinger, B., O'Donovan, M., Hardwick, R., Tavaré, S., Fitzgerald, R. C. & Oesophageal Cancer Clinical and Molecular Stratification (OCCAMS) Consortium, 1 Jun 2017, In: Genome Research. 27, 6, p. 902-912 11 p.

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Appraising the relevance of DNA copy number loss and gain in prostate cancer using whole genome DNA sequence data

Camacho, N., Van Loo, P., Edwards, S., Kay, J. D., Matthews, L., Haase, K., Clark, J., Dennis, N., Thomas, S., Kremeyer, B., Zamora, J., Butler, A. P., Gundem, G., Merson, S., Luxton, H., Hawkins, S., Ghori, M., Marsden, L., Lambert, A. & Karaszi, K. & 37 others, Pelvender, G., Massie, C. E., Kote-Jarai, Z., Raine, K., Jones, D., Howat, W. J., Hazell, S., Livni, N., Fisher, C., Ogden, C., Kumar, P., Thompson, A., Nicol, D., Mayer, E., Dudderidge, T., Yu, Y., Zhang, H., Shah, N. C., Gnanapragasam, V. J., Group, T.C.-I. P., Isaacs, W., Visakorpi, T., Hamdy, F., Berney, D., Verrill, C., Warren, A. Y., Wedge, D. C., Lynch, A. G., Foster, C. S., Lu, Y. J., Bova, G. S., Whitaker, H. C., McDermott, U., Neal, D. E., Eeles, R., Cooper, C. S. & Brewer, D. S., 25 Sept 2017, In: PLoS Genetics. 13, 9, e1007001.

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Genomic evolution of breast cancer metastasis and relapse

Yates, L. R., Knappskog, S., Wedge, D., Farmery, J. H. R., Gonzalez, S., Martincorena, I., Alexandrov, L. B., Van Loo, P., Haugland, H. K., Lilleng, P. K., Gundem, G., Gerstung, M., Pappaemmanuil, E., Gazinska, P., Bhosle, S. G., Jones, D., Raine, K., Mudie, L., Latimer, C. & Sawyer, E. & 10 others, Desmedt, C., Sotiriou, C., Stratton, M. R., Sieuwerts, A. M., Lynch, A. G., Martens, J. W., Richardson, A. L., Tutt, A., Lønning, P. E. & Campbell, P. J., 14 Aug 2017, In: Cancer Cell. 32, 2, p. 169-184 e7.

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New model for estimating glomerular filtration rate in patients with cancer

Janowitz, T., Williams, E. H., Marshall, A., Ainsworth, N., Thomas, P. B., Sammut, S. J., Shepherd, S., White, J., Mark, P. B., Lynch, A. G., Jodrell, D. I., Tavaré, S. & Earl, H., Aug 2017, In: Journal of Clinical Oncology. 35, 24, p. 2798-2805 10 p.

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Synthetic lethality between androgen receptor signalling and the PARP pathway in prostate cancer

Asim, M., Tarish, F., Zecchini, H. I., Sanjiv, K., Gelali, E., Massie, C. E., Baridi, A., Warren, A. Y., Zhao, W., Ogris, C., McDuffus, L.-A., Mascalchi, P., Shaw, G., Dev, H., Wadhwa, K., Wijnhoven, P., Forment, J. V., Lyons, S. R., Lynch, A. G. & O'Neill, C. & 10 others, Zecchini, V. R., Rennie, P. S., Baniahmad, A., Tavaré, S., Mills, I. G., Galanty, Y., Crosetto, N., Schultz, N., Neal, D. & Helleday, T., 29 Aug 2017, In: Nature Communications. 8, 10 p., 374.

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2016

Authentication and characterisation of a new oesophageal adenocarcinoma cell line: MFD-1

Garcia, E., Hayden, A., Birts, C., Britton, E., Cowie, A., Pickard, K., Mellone, M., Choh, C., Derouet, M., Duriez, P., Noble, F., White, M. J., Primrose, J. N., Strefford, J. C., Rose-Zerilli, M., Thomas, G. J., Ang, Y., Sharrocks, A. D., Fitzgerald, R. C. & Underwood, T. J. & 1 others, OCCAMS Consortium, 7 Sept 2016, In: Scientific Reports. 6, 12 p., 32417.

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Cholinekinase alpha as an androgen receptor chaperone and prostate cancer therapeutic target

Asim, M., Massie, C. E., Orafidiya, F., Pértega-Gomes, N., Warren, A. Y., Esmaeili, M., Selth, L. A., Zecchini, H. I., Luko, K., Qureshi, A., Baridi, A., Menon, S., Madhu, B., Escriu, C., Lyons, S., Vowler, S. L., Zecchini, V. R., Shaw, G., Hessenkemper, W. & Russell, R. & 20 others, Mohammed, H., Stefanos, N., Lynch, A. G., Grigorenko, E., D’Santos, C., Taylor, C., Lamb, A., Sriranjan, R., Yang, J., Stark, R., Dehm, S. M., Rennie, P. S., Carroll, J. S., Griffiths, J. R., Tavaré, S., Mills, I. G., McEwan, I. J., Baniahmad, A., Tilley, W. D. & Neal, D. E., 1 May 2016, In: Journal of the National Cancer Institute. 108, 5, djv371.

Research output: Contribution to journal › Article › peer-review

Open Access

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Decomposition of mutational context signatures using quadratic programming methods

Lynch, A. G., 7 Jun 2016, In: F1000Research. 5, 1253.

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Mutational signatures in esophageal adenocarcinoma define etiologically distinct subgroups with therapeutic relevance

Secrier, M., Li, X., de Silva, N., Eldridge, M. D., Contino, G., Bornschein, J., MacRae, S., Grehan, N., O'Donovan, M., Miremadi, A., Yang, T.-P., Bower, L., Chettouh, H., Crawte, J., Galeano-Dalmau, N., Grabowska, A., Saunders, J., Underwood, T., Waddell, N. & Barbour, A. P. & 7 others, Nutzinger, B., Achilleos, A., Edwards, P. A. W., Lynch, A. G., Tavaré, S., Fitzgerald, R. C. & Oesophageal Cancer Clinical and Molecular Stratification (OCCAMS) Consortium, Oct 2016, In: Nature Genetics. 48, 10, p. 1131-1141 11 p.

Research output: Contribution to journal › Article › peer-review

Open Access

Mutational signatures of ionizing radiation in second malignancies

Behjati, S., Gundem, G., Wedge, D. C., Roberts, N. D., Tarpey, P. S., Cooke, S. L., Van Loo, P., Alexandrov, L. B., Ramakrishna, M., Davies, H., Nik-Zainal, S., Hardy, C., Latimer, C., Raine, K. M., Stebbings, L., Menzies, A., Jones, D., Shepherd, R., Butler, A. P. & Teague, J. W. & 13 others, Jorgensen, M., Khatri, B., Pillay, N., Shlien, A., Futreal, P. A., Badie, C., McDermott, U., Bova, G. S., Richardson, A. L., Flanagan, A. M., Stratton, M. R., Campbell, P. J. & ICGC Prostate Group, 12 Sept 2016, In: Nature Communications. 7, 8 p., 12605.

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The early effects of rapid androgen deprivation on human prostate cancer

Shaw, G. L., Whitaker, H., Corcoran, M., Dunning, M. J., Luxton, H., Kay, J., Massie, C. E., Miller, J. L., Lamb, A. D., Ross-Adams, H., Russell, R., Nelson, A. W., Eldridge, M. D., Lynch, A. G., Ramos-Montoya, A., Mills, I. G., Taylor, A. E., Arlt, W., Shah, N. & Warren, A. Y. & 1 others, Neal, D. E., Aug 2016, In: European Urology. 70, 2, p. 214-218 5 p.

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Open Access

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Whole blood mRNA in prostate cancer reveals a four-gene androgen regulated panel

Thomas, B. C., Kay, J. D., Menon, S., Vowler, S. L., Dawson, S. N., Bucklow, L. J., Luxton, H. J., Johnston, T., Massie, C. E., Pugh, M., Warren, A. Y., Barker, P., Burling, K., Lynch, A. G., George, A., Burge, J., Corcoran, M., Stearn, S., Lamb, A. D. & Sharma, N. L. & 3 others, Shaw, G. L., Neal, D. E. & Whitaker, H. C., 1 Oct 2016, In: Endocrine-Related Cancer. 23, 10, p. 797-812 16 p.

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Open Access

Whole-genome sequencing of nine esophageal adenocarcinoma cell lines

Contino, G., Eldridge, M. D., Secrier, M., Bower, L., Elliott, R. F., Weaver, J., Lynch, A. G., Edwards, P. A. W. & Fitzgerald, R. C., 10 Jun 2016, In: F1000Research. 5, 1336.

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Open Access

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2015

5-hydroxymethylcytosine marks promoters in colon that resist DNA hypermethylation in cancer

Uribe-Lewis, S., Stark, R., Carroll, T., Dunning, M. J., Bachman, M., Ito, Y., Stojic, L., Halim, S., Vowler, S. L., Lynch, A. G., Delatte, B., de Bony, E. J., Colin, L., Defrance, M., Krueger, F., Silva, A. L., ten Hoopen, R., Ibrahim, A. E. K., Fuks, F. & Murrell, A., 1 Apr 2015, In: Genome Biology. 16, 15 p., 69.

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Open Access

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A comprehensive assessment of somatic mutation detection in cancer using whole-genome sequencing

Alioto, T. S., Buchhalter, I., Derdak, S., Hutter, B., Eldridge, M. D., Hovig, E., Heisler, L. E., Beck, T. A., Simpson, J. T., Tonon, L., Sertier, A.-S., Patch, A.-M., Jaeger, N., Ginsbach, P., Drews, R., Paramasivam, N., Kabbe, R., Chotewutmontri, S., Diessl, N. & Previti, C. & 63 others, Schmidt, S., Brors, B., Feuerbach, L., Heinold, M., Groebner, S., Korshunov, A., Tarpey, P. S., Butler, A. P., Hinton, J., Jones, D., Menzies, A., Raine, K., Shepherd, R., Stebbings, L., Teague, J. W., Ribeca, P., Giner, F. C., Beltran, S., Raineri, E., Dabad, M., Heath, S. C., Gut, M., Denroche, R. E., Harding, N. J., Yamaguchi, T. N., Fujimoto, A., Nakagawa, H., Quesada, C., Valdes-Mas, R., Nakken, S., Vodak, D., Bower, L., Lynch, A. G., Anderson, C. L., Waddell, N., Pearson, J. V., Grimmond, S. M., Peto, M., Spellman, P., He, M., Kandoth, C., Lee, S., Zhang, J., Letourneau, L., Ma, S., Seth, S., Torrents, D., Xi, L., Wheeler, D. A., Lopez-Otin, C., Campo, E., Campbell, P. J., Boutros, P. C., Puente, X. S., Gerhard, D. S., Pfister, S. M., McPherson, J. D., Hudson, T. J., Schlesner, M., Lichter, P., Eils, R., Jones, D. T. W. & Gut, I. G., 9 Dec 2015, In: Nature Communications. 6, 13 p., 10001.

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Open Access

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Analysis of the genetic phylogeny of multifocal prostate cancer identifies multiple independent clonal expansions in neoplastic and morphologically normal prostate tissue

Cooper, C. S., Eeles, R., Wedge, D. C., Van Loo, P., Gundem, G., Alexandrov, L. B., Kremeyer, B., Butler, A., Lynch, A. G., Camacho, N., Massie, C. E., Kay, J., Luxton, H. J., Edwards, S., Kote-Jarai, Z., Dennis, N., Merson, S., Leongamornlert, D., Zamora, J. & Corbishley, C. & 51 others, Thomas, S., Nik-Zainal, S., O'Meara, S., Matthews, L., Clark, J., Hurst, R., Mithen, R., Bristow, R. G., Boutros, P. C., Fraser, M., Cooke, S., Raine, K., Jones, D., Menzies, A., Stebbings, L., Hinton, J., Teague, J., McLaren, S., Mudie, L., Hardy, C., Anderson, E., Joseph, O., Goody, V., Robinson, B., Maddison, M., Gamble, S., Greenman, C., Berney, D., Hazell, S., Livni, N., Fisher, C., Ogden, C., Kumar, P., Thompson, A., Woodhouse, C., Nicol, D., Mayer, E., Dudderidge, T., Shah, N. C., Gnanapragasam, V., Voet, T., Campbell, P., Futreal, A., Easton, D., Warren, A. Y., Foster, C. S., Stratton, M. R., Whitaker, H. C., McDermott, U., Brewer, D. S. & Neal, D. E., 28 Apr 2015, In: Nature Genetics. 47, 4, p. 367-372 6 p.

Research output: Contribution to journal › Article › peer-review

A tumor DNA complex aberration index is an independent predictor of survival in breast and ovarian cancer

Vollan, H. K. M., Rueda, O. M., Chin, S.-F., Curtis, C., Turashuili, G., Shah, S., Lingjaerde, O. C., Yuan, Y., Ng, C. K., Dunning, M. J., Dicks, E., Provenzano, E., Sammut, S., McKinney, S., Ellis, I. O., Pinder, S., Purushotham, A., Murphy, L. C., Kristensen, V. N. & Brenton, J. D. & 5 others, Pharoah, P. D. P., Borresen-Dale, A.-L., Aparicio, S., Caldas, C. & METABRIC Grp, Jan 2015, In: Molecular Oncology. 9, 1, p. 115-127 13 p.

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Open Access

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Crambled: a Shiny application to enable intuitive resolution of conflicting cellularity estimates

Lynch, A., 7 Dec 2015, In: F1000Research. 4, 13 p., 1407.

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Open Access

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Epigenetic and oncogenic regulation of SLC16A7 (MCT2) results in protein over-expression, impacting on signalling and cellular phenotypes in prostate cancer

Pértega-Gomes, N., Vizcaino, J. R., Felisbino, S., Warren, A. Y., Shaw, G., Kay, J., Whitaker, H., Lynch, A. G., Fryer, L., Neal, D. E. & Massie, C. E., 2 Jun 2015, In: Oncotarget. 6, 25, p. 21675-21684 10 p.

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Open Access

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Andy Lynch

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