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Unlocking capacities of genomics for the COVID-19 response and future pandemics.
Knyazev S, Chhugani K, Sarwal V, Ayyala R, Singh H, Karthikeyan S, Deshpande D, Baykal PI, Comarova Z, Lu A, Porozov Y, Vasylyeva TI, Wertheim JO, Tierney BT, Chiu CY, Sun R, Wu A, Abedalthagafi MS, Pak VM, Nagaraj SH, Smith AL, Skums P, Pasaniuc B, Komissarov A, Mason CE, Bortz E, Lemey P, Kondrashov F, Beerenwinkel N, Lam TT, Wu NC, Zelikovsky A, Knight R, Crandall KA, Mangul S. Knyazev S, et al. Among authors: lam tt. Nat Methods. 2022 Apr;19(4):374-380. doi: 10.1038/s41592-022-01444-z. Nat Methods. 2022. PMID: 35396471 Free PMC article.
Phylodynamics of H5N1 avian influenza virus in Indonesia.
Lam TT, Hon CC, Lemey P, Pybus OG, Shi M, Tun HM, Li J, Jiang J, Holmes EC, Leung FC. Lam TT, et al. Mol Ecol. 2012 Jun;21(12):3062-77. doi: 10.1111/j.1365-294X.2012.05577.x. Epub 2012 May 11. Mol Ecol. 2012. PMID: 22574738
Identifying SARS-CoV-2-related coronaviruses in Malayan pangolins.
Lam TT, Jia N, Zhang YW, Shum MH, Jiang JF, Zhu HC, Tong YG, Shi YX, Ni XB, Liao YS, Li WJ, Jiang BG, Wei W, Yuan TT, Zheng K, Cui XM, Li J, Pei GQ, Qiang X, Cheung WY, Li LF, Sun FF, Qin S, Huang JC, Leung GM, Holmes EC, Hu YL, Guan Y, Cao WC. Lam TT, et al. Nature. 2020 Jul;583(7815):282-285. doi: 10.1038/s41586-020-2169-0. Epub 2020 Mar 26. Nature. 2020. PMID: 32218527
Sampling bias and incorrect rooting make phylogenetic network tracing of SARS-COV-2 infections unreliable.
Mavian C, Pond SK, Marini S, Magalis BR, Vandamme AM, Dellicour S, Scarpino SV, Houldcroft C, Villabona-Arenas J, Paisie TK, Trovão NS, Boucher C, Zhang Y, Scheuermann RH, Gascuel O, Lam TT, Suchard MA, Abecasis A, Wilkinson E, de Oliveira T, Bento AI, Schmidt HA, Martin D, Hadfield J, Faria N, Grubaugh ND, Neher RA, Baele G, Lemey P, Stadler T, Albert J, Crandall KA, Leitner T, Stamatakis A, Prosperi M, Salemi M. Mavian C, et al. Among authors: lam tt. Proc Natl Acad Sci U S A. 2020 Jun 9;117(23):12522-12523. doi: 10.1073/pnas.2007295117. Epub 2020 May 7. Proc Natl Acad Sci U S A. 2020. PMID: 32381734 Free PMC article. No abstract available.
Incorporating heterogeneous sampling probabilities in continuous phylogeographic inference - Application to H5N1 spread in the Mekong region.
Dellicour S, Lemey P, Artois J, Lam TT, Fusaro A, Monne I, Cattoli G, Kuznetsov D, Xenarios I, Dauphin G, Kalpravidh W, Von Dobschuetz S, Claes F, Newman SH, Suchard MA, Baele G, Gilbert M. Dellicour S, et al. Among authors: lam tt. Bioinformatics. 2020 Apr 1;36(7):2098-2104. doi: 10.1093/bioinformatics/btz882. Bioinformatics. 2020. PMID: 31790143 Free PMC article.
Metavirome of 31 tick species provides a compendium of 1,801 RNA virus genomes.
Ni XB, Cui XM, Liu JY, Ye RZ, Wu YQ, Jiang JF, Sun Y, Wang Q, Shum MH, Chang QC, Zhao L, Han XH, Ma K, Shen SJ, Zhang MZ, Guo WB, Zhu JG, Zhan L, Li LJ, Ding SJ, Zhu DY, Zhang J, Xia LY, Oong XY, Ruan XD, Shao HZ, Que TC, Liu GY, Du CH, Huang EJ, Wang X, Du LF, Wang CC, Shi WQ, Pan YS, Zhou YH, Qu JL, Ma J, Gong CW, Chen QQ, Qin Q; Tick Genome and Microbiome Consortium (TIGMIC); Lam TT, Jia N, Cao WC. Ni XB, et al. Among authors: lam tt. Nat Microbiol. 2023 Jan;8(1):162-173. doi: 10.1038/s41564-022-01275-w. Epub 2023 Jan 5. Nat Microbiol. 2023. PMID: 36604510 Free PMC article.
The genesis and source of the H7N9 influenza viruses causing human infections in China.
Lam TT, Wang J, Shen Y, Zhou B, Duan L, Cheung CL, Ma C, Lycett SJ, Leung CY, Chen X, Li L, Hong W, Chai Y, Zhou L, Liang H, Ou Z, Liu Y, Farooqui A, Kelvin DJ, Poon LL, Smith DK, Pybus OG, Leung GM, Shu Y, Webster RG, Webby RJ, Peiris JS, Rambaut A, Zhu H, Guan Y. Lam TT, et al. Nature. 2013 Oct 10;502(7470):241-4. doi: 10.1038/nature12515. Epub 2013 Aug 21. Nature. 2013. PMID: 23965623 Free PMC article.
Dissemination, divergence and establishment of H7N9 influenza viruses in China.
Lam TT, Zhou B, Wang J, Chai Y, Shen Y, Chen X, Ma C, Hong W, Chen Y, Zhang Y, Duan L, Chen P, Jiang J, Zhang Y, Li L, Poon LL, Webby RJ, Smith DK, Leung GM, Peiris JS, Holmes EC, Guan Y, Zhu H. Lam TT, et al. Nature. 2015 Jun 4;522(7554):102-5. doi: 10.1038/nature14348. Epub 2015 Mar 11. Nature. 2015. PMID: 25762140
424 results