Andy G Lynch

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Andy G Lynch

Publications by authors named "Andy G Lynch"

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42Publications

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

Sci Rep 2018 Jan 22;8(1):1300. Epub 2018 Jan 22.

Cancer Research UK Cambridge Institute, University of Cambridge, Li Ka Shing Centre, Robinson Way, Cambridge, CB2 0RE, UK.

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January 2018

New Model for Estimating Glomerular Filtration Rate in Patients With Cancer.

J Clin Oncol 2017 Aug 7;35(24):2798-2805. Epub 2017 Jul 7.

Tobias Janowitz, Edward H. Williams, Stephen J. Sammut, Andy G. Lynch, Duncan I. Jodrell, Simon Tavaré, and Helena Earl, Cancer Research UK Cambridge Institute, Tobias Janowitz, Peter B. Thomas, and Duncan I. Jodrell, University of Cambridge, Addenbrooke's Hospital, Cambridge; Andrea Marshall, University of Warwick, Coventry; Nicola Ainsworth, Queen Elizabeth Hospital, King's Lynn; Scott Shepherd, Royal Marsden Hospital, London; Jeff White, NHS Greater Glasgow and Clyde; and Patrick B. Mark, Institute of Cardiovascular and Medical Sciences, University of Glasgow, Glasgow, United Kingdom.

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August 2017

Mining Human Prostate Cancer Datasets: The "camcAPP" Shiny App.

EBioMedicine 2017 Mar 2;17:5-6. Epub 2017 Mar 2.

Cancer Research UK Cambridge Institute, Cambridge Biomedical Campus, UK; Department of Genito-urinary Oncology, Peter MacCallum Cancer Centre, Melbourne, Australia; Academic Urology Group, Department of Surgery, University of Cambridge, UK. Electronic address:

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March 2017

The importance of DNA methylation in prostate cancer development.

J Steroid Biochem Mol Biol 2017 02 24;166:1-15. Epub 2016 Apr 24.

Cancer Research UK Cambridge Institute, University of Cambridge, Li Ka Shing Centre, Robinson Way, Cambridge, UK. Electronic address:

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February 2017

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

Endocr Relat Cancer 2016 10 30;23(10):797-812. Epub 2016 Aug 30.

Uro-Oncology Research GroupCancer Research UK Cambridge Institute, Robinson Way, Cambridge, UK Biomarker InitiativeCancer Research UK Cambridge Institute, Robinson Way, Cambridge, UK Molecular Diagnostics and Therapeutics GroupUniversity College London, London, UK

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October 2016

Whole-genome sequencing of nine esophageal adenocarcinoma cell lines.

F1000Res 2016 10;5:1336. Epub 2016 Jun 10.

Medical Research Council (MRC) Cancer Unit, University of Cambridge, Cambridge, UK.

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September 2016

Choline Kinase Alpha as an Androgen Receptor Chaperone and Prostate Cancer Therapeutic Target.

J Natl Cancer Inst 2016 May 11;108(5). Epub 2015 Dec 11.

Affiliations of authors:Cancer Research UK Cambridge Institute, University of Cambridge , Cambridge, UK (MA, CEM, NP, HIZ, AQ, AB, SM, BM, CE, SL, SW, VRZ, GS, RR, HM, AGL, CD, CT, AL, RS, JY, RS, JSC, JRG, ST, DEN); School of Medical Sciences, University of Aberdeen , Aberdeen, UK (FO, IJM); Department of Pathology, Addenbrooke's Hospital , Cambridge, UK (AYW, NS); Institute of Human Genetics, Jena University Hospital , Jena , Germany (ME, KL, WH, AB); Dame Roma Mitchell Cancer Research Laboratories, School of Medicine, Faculty of Health Sciences, University of Adelaide , Australia (LAS, WDT); Freemasons Foundation Centre for Men's Health, School of Medicine, Faculty of Health Sciences, University of Adelaide , Australia (LAS, WDT); Diatherix , Huntsville, AL (EG); Masonic Cancer Center, University of Minnesota , Minneapolis, MN (SMD); The Vancouver Prostate Centre, Department of Urologic Sciences, University of British Columbia , Vancouver BC , Canada (PSR); Centre for Molecular Medicine Norway, Nordic EMBL Partnership, University of Oslo and Oslo University Hospital , Oslo , Norway (IGM); Department of Cancer Prevention, Institute of Cancer Research and Department of Urology, Oslo University Hospital , Oslo , Norway (IGM); Prostate Cancer UK/Movember Centre of Excellence, Queens University , Belfast , UK (IGM); Department of Oncology, Addenbrooke's Hospital , Cambridge, UK (MA, DEN).

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May 2016

multiSNV: a probabilistic approach for improving detection of somatic point mutations from multiple related tumour samples.

Nucleic Acids Res 2015 May 26;43(9):e61. Epub 2015 Feb 26.

Cancer Research UK Cambridge Institute, Li Ka Shing Centre, Robinson Way, Cambridge CB2 0RE, UK

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May 2015

HES5 silencing is an early and recurrent change in prostate tumourigenesis.

Endocr Relat Cancer 2015 Apr 5;22(2):131-44. Epub 2015 Jan 5.

Cancer Research UK Cambridge InstituteUniversity of Cambridge, Cambridge, CB2 0RE, UKDivision of Genetics and EpidemiologyThe Institute of Cancer Research, Sutton, UKDepartment of Biological Sciences and School of MedicineUniversity of East Anglia, Norwich, UKRoyal Marsden NHS Foundation TrustLondon and Sutton, UKDepartments of PathologyUrologySurgical OncologyAddenbrooke's Hospital, Hills Road, Cambridge, UK

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April 2015

Quantifying the impact of inter-site heterogeneity on the distribution of ChIP-seq data.

Front Genet 2014 14;5:399. Epub 2014 Nov 14.

Cancer Research UK Cambridge Institute, University of Cambridge Cambridge, UK.

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December 2014

Calling sample mix-ups in cancer population studies.

PLoS One 2012 9;7(8):e41815. Epub 2012 Aug 9.

Department of Oncology, University of Cambridge, Cambridge, Cambridgeshire, United Kingdom.

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April 2013

BeadArray expression analysis using bioconductor.

PLoS Comput Biol 2011 Dec 1;7(12):e1002276. Epub 2011 Dec 1.

Bioinformatics Division, The Walter and Eliza Hall Institute of Medical Research, Parkville, Victoria, Australia.

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December 2011

BayesPeak--an R package for analysing ChIP-seq data.

Bioinformatics 2011 Mar 17;27(5):713-4. Epub 2011 Jan 17.

Department of Oncology, University of Cambridge, Li Ka Shing Centre, Cambridge, UK.

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March 2011

The cost of reducing starting RNA quantity for Illumina BeadArrays: a bead-level dilution experiment.

BMC Genomics 2010 Oct 6;11:540. Epub 2010 Oct 6.

Department of Oncology, University of Cambridge, Li Ka Shing Centre, Robinson Way, Cambridge, UK.

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October 2010

BeadDataPackR: A Tool to Facilitate the Sharing of Raw Data from Illumina BeadArray Studies.

Cancer Inform 2010 Sep 29;9:217-27. Epub 2010 Sep 29.

Department of Oncology, University of Cambridge, Cancer Research UK Cambridge Research Institute, Robinson Way, Cambridge CB2 0RE, UK.

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September 2010

Driver mutations in TP53 are ubiquitous in high grade serous carcinoma of the ovary.

J Pathol 2010 May;221(1):49-56

Functional Genomics of Ovarian Cancer Laboratory, Cancer Research UK Cambridge Research Institute, Li Ka Shing Centre, Robinson Way, Cambridge, CB2 0RE, UK.

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May 2010

Identification and correction of previously unreported spatial phenomena using raw Illumina BeadArray data.

BMC Bioinformatics 2010 Apr 27;11:208. Epub 2010 Apr 27.

Cancer Research UK, Cambridge Research Institute, Li Ka Shing Centre, Robinson Way, Cambridge, CB2 0RE, UK.

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April 2010

A re-annotation pipeline for Illumina BeadArrays: improving the interpretation of gene expression data.

Nucleic Acids Res 2010 Jan 18;38(3):e17. Epub 2009 Nov 18.

Department of Oncology, University of Cambridge, Cambridge CB2 0RE, UK.

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January 2010

The pitfalls of platform comparison: DNA copy number array technologies assessed.

BMC Genomics 2009 Dec 8;10:588. Epub 2009 Dec 8.

Department of Oncology, University of Cambridge, Addenbrooke's Hopsital, Hills Road, Cambridge CB20XZ, UK.

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December 2009

BayesPeak: Bayesian analysis of ChIP-seq data.

BMC Bioinformatics 2009 Sep 21;10:299. Epub 2009 Sep 21.

Statistical Laboratory, Centre for Mathematical Sciences, Wilberforce Road, Cambridge, UK.

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September 2009

Spike-in validation of an Illumina-specific variance-stabilizing transformation.

BMC Res Notes 2008 Jun 4;1:18. Epub 2008 Jun 4.

Department of Oncology, University of Cambridge, CRUK Cambridge Research Institute, Li Ka Shing Centre, Robinson Way, Cambridge, CB2 0RE, UK.

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June 2008

Statistical issues in the analysis of Illumina data.

BMC Bioinformatics 2008 Feb 6;9:85. Epub 2008 Feb 6.

Department of Oncology, University of Cambridge, CRUK Cambridge Research Institute, Li Ka Shing Centre, Robinson Way, Cambridge CB2 0RE, UK.

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February 2008

New androgen receptor genomic targets show an interaction with the ETS1 transcription factor.

EMBO Rep 2007 Sep 17;8(9):871-8. Epub 2007 Aug 17.

Uro-Oncology Research Group, Department of Oncology, University of Cambridge, Cancer Research UK Cambridge, Research Institute, Li Ka Shing Centre, Robinson Way, Cambridge CB2 0RE, UK.

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September 2007

Missing channels in two-colour microarray experiments: combining single-channel and two-channel data.

BMC Bioinformatics 2007 Jan 25;8:26. Epub 2007 Jan 25.

Department of Oncology, University of Cambridge, Cambridge, UK.

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January 2007