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Items: 11

1.

Link between the numbers of particles and variants founding new HIV-1 infections depends on the timing of transmission.

Thompson RN, Wymant C, Spriggs RA, Raghwani J, Fraser C, Lythgoe KA.

Virus Evol. 2019 Jan 30;5(1):vey038. doi: 10.1093/ve/vey038. eCollection 2019 Jan.

2.

Airborne in the era of climate change.

Jean K, Wymant C.

Science. 2019 Jan 18;363(6424):240. doi: 10.1126/science.aaw1145. No abstract available.

PMID:
30655436
3.

Easy and accurate reconstruction of whole HIV genomes from short-read sequence data with shiver.

Wymant C, Blanquart F, Golubchik T, Gall A, Bakker M, Bezemer D, Croucher NJ, Hall M, Hillebregt M, Ong SH, Ratmann O, Albert J, Bannert N, Fellay J, Fransen K, Gourlay A, Grabowski MK, Gunsenheimer-Bartmeyer B, Günthard HF, Kivelä P, Kouyos R, Laeyendecker O, Liitsola K, Meyer L, Porter K, Ristola M, van Sighem A, Berkhout B, Cornelissen M, Kellam P, Reiss P, Fraser C; BEEHIVE Collaboration.

Virus Evol. 2018 May 18;4(1):vey007. doi: 10.1093/ve/vey007. eCollection 2018 Jan.

4.

The evolution of subtype B HIV-1 tat in the Netherlands during 1985-2012.

van der Kuyl AC, Vink M, Zorgdrager F, Bakker M, Wymant C, Hall M, Gall A, Blanquart F, Berkhout B, Fraser C, Cornelissen M; BEEHIVE Collaboration.

Virus Res. 2018 May 2;250:51-64. doi: 10.1016/j.virusres.2018.04.008. Epub 2018 Apr 11.

5.

Workup of Human Blood Samples for Deep Sequencing of HIV-1 Genomes.

Cornelissen M, Gall A, van der Kuyl A, Wymant C, Blanquart F, Fraser C, Berkhout B.

Methods Mol Biol. 2018;1746:55-61. doi: 10.1007/978-1-4939-7683-6_5.

PMID:
29492886
6.

PHYLOSCANNER: Inferring Transmission from Within- and Between-Host Pathogen Genetic Diversity.

Wymant C, Hall M, Ratmann O, Bonsall D, Golubchik T, de Cesare M, Gall A, Cornelissen M, Fraser C; STOP-HCV Consortium, The Maela Pneumococcal Collaboration, and The BEEHIVE Collaboration.

Mol Biol Evol. 2017 Nov 23. doi: 10.1093/molbev/msx304. [Epub ahead of print]

7.

Correction: Viral genetic variation accounts for a third of variability in HIV-1 set-point viral load in Europe.

Blanquart F, Wymant C, Cornelissen M, Gall A, Bakker M, Bezemer D, Hall M, Hillebregt M, Ong SH, Albert J, Bannert N, Fellay J, Fransen K, Gourlay AJ, Grabowski MK, Gunsenheimer-Bartmeyer B, Günthard HF, Kivelä P, Kouyos R, Laeyendecker O, Liitsola K, Meyer L, Porter K, Ristola M, van Sighem A, Vanham G, Berkhout B, Kellam P, Reiss P, Fraser C; BEEHIVE collaboration.

PLoS Biol. 2017 Jul 13;15(7):e1002608. doi: 10.1371/journal.pbio.1002608. eCollection 2017 Jul.

8.

Viral genetic variation accounts for a third of variability in HIV-1 set-point viral load in Europe.

Blanquart F, Wymant C, Cornelissen M, Gall A, Bakker M, Bezemer D, Hall M, Hillebregt M, Ong SH, Albert J, Bannert N, Fellay J, Fransen K, Gourlay AJ, Grabowski MK, Gunsenheimer-Bartmeyer B, Günthard HF, Kivelä P, Kouyos R, Laeyendecker O, Liitsola K, Meyer L, Porter K, Ristola M, van Sighem A, Vanham G, Berkhout B, Kellam P, Reiss P, Fraser C; BEEHIVE collaboration.

PLoS Biol. 2017 Jun 12;15(6):e2001855. doi: 10.1371/journal.pbio.2001855. eCollection 2017 Jun. Erratum in: PLoS Biol. 2017 Jul 13;15(7):e1002608.

9.

HIV-1 full-genome phylogenetics of generalized epidemics in sub-Saharan Africa: impact of missing nucleotide characters in next-generation sequences.

Ratmann O, Wymant C, Colijn C, Danaviah S, Essex M, Frost SDW, Gall A, Gaiseitsiwe S, Grabowski M, Gray R, Guindon S, von Haeseler A, Kaleebu P, Kendall M, Kozlov A, Manasa J, Minh BQ, Moyo S, Novitsky V, Nsubuga R, Pillay S, Quinn TC, Serwadda D, Ssemwanga D, Stamatakis A, Trifinopoulos J, Wawer M, Leigh Brown A, de Oliveira T, Kellam P, Pillay D, Fraser C.

AIDS Res Hum Retroviruses. 2017 May 25. doi: 10.1089/AID.2017.0061. [Epub ahead of print]

10.

Horizontal DNA Transfer Mechanisms of Bacteria as Weapons of Intragenomic Conflict.

Croucher NJ, Mostowy R, Wymant C, Turner P, Bentley SD, Fraser C.

PLoS Biol. 2016 Mar 2;14(3):e1002394. doi: 10.1371/journal.pbio.1002394. eCollection 2016 Mar.

11.

Protein structural robustness to mutations: an in silico investigation.

Achoch M, Dorantes-Gilardi R, Wymant C, Feverati G, Salamatian K, Vuillon L, Lesieur C.

Phys Chem Chem Phys. 2016 May 18;18(20):13770-80. doi: 10.1039/c5cp06091e.

PMID:
26688116

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