Community Designs for Infectious Disease Research

1. Williams, R.J.; Tuthill, H.; Roy, S.; Romero, E.Y.; Williams, C.A. Breuer, J.; Depledge, D. Utilization of Agilent SureSelect Target Enrichment for Whole Genome Sequencing of Viruses and Bacteria. Agilent Application Note. 2019, PN 5994-0909EN. Learn More
2. Clark, S.A.; Doyle, R.; Lucidarme, J.; Borrow, R.; Breuer, Targeted DNA enrichment and whole genome sequencing of Neisseria meningitidis directly from clinical specimens. Int. J. Med. Microbiol. 2018, 308: 256-262.
3. Houldcroft, C.J.; Roy, S.; Morfopoulou, S.; Margetts, B.K.; Delpedge, D.P.; Cudini, J.; Shah, D.; Brown, J.R.; Romero, E.Y. Williams, R.; Cluotman-green, E.; Ro, K.; Standing, J.F.; Hartley, J.C. Breuer, J. Use of whole-genome sequencing of adenovirus in immunocompromised pediatric patients to identify nosocomial transmission and mixed-genotype infection. J. Infect. Dis. 2018, 218:1261-1271.
4. Brown, J.; Roy, S.; Ruis, C.; Romero, E.; Shahb D.; Williams, R.; Breuera, J. Norovirus Whole-Genome Sequencing by SureSelect Target Enrichment: a Robust and Sensitive Method. J. Clin. Microbiol. 2016, 54:2530-2537.
5. Lassalle, F.; Depledge, D.P.; Reeves, M.B.; Brown, A.C.; Christiansen M.T.; Tutill, H.J.; Williams, R.J.; Einer-Jensen, K.; Holdstock, J.; Atkinson, C.5.; Brown; J.R.; van Loenen, F.B.; Clark, D.A.; Griffiths P.D.; Verjans, G.M.; Schutten, M.; Milne, R.S.B.; Balloux, F.; Breuer, J. Islands of linkage in an ocean of pervasive recombination reveals two-speed evolution of human cytomegalovirus genomes. Virus Evol. 2106, 2(1): vew017. doi: 10.1093/ve/vew017. eCollection 2016 Jan.
6. Thomson, E.; Ip, C.L.; Badhan, A.; Christiansen, M.T.; Adamson, W.; Ansari, M.A.; Bibby, D.; Breuer, J.; Brown, A.; Bowden, R.; Bryant, J.; Bonsall, D.; Da Silva Filipe, A.; Hinds, C.; Hudson, E.; Klenerman, P.; Lythgow, K.; Mbisa, J.L.; McLauchlan, J.; Myers, R.; Piazza, P.; Roy, S.; Trebes, A.; Sreenu, V.B.; Witteveldt, J.; STOP-HCV Consortium; Barnes, E.; Simmonds, P. Comparison of Next-Generation Sequencing Technologies for Comprehensive Assessment of Full-Length Hepatitis C Viral Genomes. J. Clin. Microbiol. 2016, 54: 24790-2484.
7. Brown, A.C.; Bryant, J.M.; Einer-Jensen, K.; Holdstock, J.; Houniet, D.T.; Chan, J.Z., Depledge, D.P.; Nikolayevskyy, V.; Broda, A.; Stone, M.J.; Christiansen, M.T.; Williams, R.; McAndrew, M.B.; Tutill, H.; Brown J.; Melzer, M.; Rosmarin, C.; McHugh, T.D.; Shorten, R.J.; Drobniewski, F.; Speight, G.; Breuer, J. Rapid Whole-Genome Sequencing of Mycobacterium tuberculosis Isolates Directly from Clinical Samples. J. Clin. Microbiol. 2015, 53(7):2230-7. 
8. Christiansen, M.T.; Brown, A.C.; Kundu, S.; Tutill, H.J.; Williams, R.; Brown, J.R.; Holdstock, J.; Holland, M.J.; Stevenson, S.; Dave, J.; Tong, C.Y.; Einer-Jensen, K.; Depledge, D.P.; Breuer, J. Whole-genome enrichment and sequencing of Chlamydia trachomatis directly from clinical Samples. BMC Infect Dis. 2014, 14:591.
9. Depledge, D.P.; Palser, A.L.; Watson, S.J.; Lai, A.I.; Gray, E.R.; Grant, P.; Kanda, R.K.; Leproust, E.; Kellam, P.; Breuer, J. Specific capture and whole-genome sequencing of viruses from clinical samples. PLos One. 2012, 7 (1) doi:10.1371/annotation/3f1444bc-ab9d-4112-958a-2e068792f26f.