Dr Camilla Ip
Senior analyst in microbial genomics
Wellcome Trust Centre for Human Genetics, Roosevelt Dr.
Although the WTCHG is best known for research into mechanisms underlying human health and disease, the Centre is also committed to developing new methods to extract clinically-useful data from pathogenic bacteria and viruses and adopting new sequencing technologies to acquire better, higher-resolution sequencing data for genetics research.
Since microbial genomics is one area that could benefit from long-read sequencing data, I have been involved in the analysis of MinION data from the new Oxford Nanopore platform and exploring potential applications for microbial research. The rest of my time is split between pipeline development for collaborative projects like as the STOP-HCV Consortium, and bioinformatics support for research projects within the Centre and clients of the Oxford Genomics Centre.
Following my undergraduate degree in computer science, I worked as a software engineer in the finance industry for 8 years. After completing a Master of Applied Science in Bioinformatics and a PhD in cyanobacterial genomics at the University of Sydney (Australia), I worked as a Bioinformatician with the UK CRC Modernising Medical Microbiology Consortium in Oxford.
Walker TM, Kohl TA, Omar SV, Hedge J, Del Ojo Elias C, Bradley P, Iqbal Z, Feuerriegel S, Niehaus KE, Wilson DJ, Clifton DA, Kapatai G, Ip CL, Bowden R, Drobniewski FA, Allix-Béguec C, Gaudin C, Parkhill J, Diel R, Supply P, Crook DW, Smith EG, Walker AS, Ismail N, Niemann S, Peto TE; Modernizing Medical Microbiology (MMM) Informatics Group (2015). Whole-genome sequencing for prediction of Mycobacterium tuberculosis drug susceptibility and resistance: a retrospective cohort study. Lancet Infectious Diseases 3099(15):00062-6.
Everitt RG, Didelot X, Batty EM, Miller RR, Knox K, Young BC, Bowden R, Auton A, Votintseva A, Larner-Svensson H, Charlesworth J, Golubchik T, Ip CL, Godwin H, Fung R, Peto TE, Walker AS, Crook DW, Wilson DJ (2014). Mobile elements drive recombination hotspots in the core genome of Staphylococcus aureus. Nature Communications 5:3956.
Miller RR, Price JR, Batty EM, Didelot X, Wyllie D, Golubchik T, Crook DW, Paul J, Peto TEA, Wilson DJ, Cule M, Ip CLC, Day NPJ, Moore CE, Bowden R, Llewelyn MJ (2014). Healthcare-associated outbreak of meticillin-resistant Staphylococcus aureus bacteraemia: role of a cryptic variant of an epidemic clone. Journal of Hospital Infections 86(2):83-89.
Everitt RG, Didelot X, Batty EM, Miller RR, Knox K, Young BC, Bowden R, Adam Auton A, Votintseva A, Larner-Svensson H, Charlesworth J, Golubchik T, Ip CLC, Godwin H, Fung R, Peto TEA, Walker AS, Crook DW, Wilson DJ (2014). Mobile elements drive recombination hotspots in the core genome of Staphylococcus aureus. Nature Communications 5:3956.
Eyre DE, Cule ML, Wilson DJ, Griffiths D, Vaughan A, O’Connor L, Ip CLC, Golubchik T, Batty EM, Finney JM, Wyllie DH, Didelot X, Piazza P, Bowden R, Dingle KE, Harding RM, Crook DW, Wilcox MH, Peto TEA, Walker AS (2013). Diverse sources of C. difficile infection identified on whole-genome sequencing. New England Journal of Medicine 369(13):1195-1205.
Walker TM, Ip CLC, Harrell RH, Evans JT, Kapatai G, Dedicoat MJ, Eyre DW, Wilson DJ, Hawkey PM, Crook DW, Parkhill H, Harris D, Walker AS, Bowden R, Monk, P, Smith EG, Peto TEA (2013). Whole-genome sequencing to delineate Mycobacterium tuberculosis outbreaks: a retrospective observational study. The Lancet Infectious Diseases 13(2):137-146.
Dingle KE, Didelot X, Ansari MA, Eyre DW, Vaughan A, Griffiths D, Ip CLC, Batty EM, Golubchik T, Bowden R, Jolley KA, Hood DW, Fawley WN, Walker AS, Peto TE, Wilcox MH, Crook DW (2013). Recombinational switching of the Clostridium difficile S-layer and a novel glycosylation gene cluster revealed by large-scale whole-genome sequencing. Journal of Infectious Diseases 207(4):675-686.
Golubchik T, Batty EM, Miller RR, Farr H, Young BC, Larner-Svensson H, Fung R, Godwin H, Knox K, Votintseva A, Everitt RG, Street T, Cule M, Ip CLC, Didelot X, Peto TEA, Harding RM, Wilson DJ, Crook DW, Bowden R (2013). Within-host evolution of Staphylococcus aureus during asymptomatic carriage. PLoS One 8(5):e61319.
Batty EM, Wong THN, Trebes A, Argoud K, Attar M, Buck D, Ip CLC, Golubchik T, Cule M, Bowden R, Manganis C, lenerman P, Barnes E, Walker AS, Wyliie DH, Wilson DJ, Dingle KE, Peto TEA, Crook DW, Piazza P (2013). A modified RNA-Seq approach for whole genome sequencing of RNA viruses from faecal and blood samples. PLoS One 8(6):e66129.
Didelot X, Eyre DW, Cule M, Ip CL, Ansari MA, Griffiths D, Vaughan A, O'Connor L, Golubchik T, Batty EM, Piazza P, Wilson DJ, Bowden R, Donnelly PJ, Dingle KE, Wilcox M, Walker AS, Crook DW, Peto TE, Harding RM (2012). Microevolutionary analysis of Clostridium difficile genomes to investigate transmission. Genome Biology 13(12):R118.
Young BC, Golubchik T, Batty EM, Fung R, Larner-Svensson H, Votintseva AA, Miller RR, Godwin H, Knox K, Everitt RG, Iqbal Z, Rimmer AJ, Cule M, Ip CLC, Didelot X, Harding RM, Donnelly P, Peto TE, Crook DW, Bowden R, Wilson DJ (2012). Evolutionary dynamics of Staphylococcus aureus durig progression from carriage to disease. Proceedings of the Nationall Academy of Sciences USA. 2012 March 20; 109(12): 4550–4555.
Eyre EW, Golubchik T, Gordon NC, Bowden R, Piazza P, Batty EM, Ip CLC, Wilson DJ, Didelot X, O'Connor L, Lay R, Buck D, Kearns AM, Shaw A, Paul J, Wilcox MH, Donnelly PJ, Peto TE, Walker AS, Crook DW (2012). A pilot study of rapid benchtop sequencing of Staphylococcus aureus and Clostridium difficile for outbreak detection and surveillance British Medical Journal 2(3):e001124.