Parameters and determinants of responses to selection in antibody libraries
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DOI: 10.1371/journal.pcbi.1008751
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- Jordan R Willis & Bryan S Briney & Samuel L DeLuca & James E Crowe Jr & Jens Meiler, 2013. "Human Germline Antibody Gene Segments Encode Polyspecific Antibodies," PLOS Computational Biology, Public Library of Science, vol. 9(4), pages 1-14, April.
- Shimon Bershtein & Michal Segal & Roy Bekerman & Nobuhiko Tokuriki & Dan S. Tawfik, 2006. "Robustness–epistasis link shapes the fitness landscape of a randomly drifting protein," Nature, Nature, vol. 444(7121), pages 929-932, December.
- Johannes F. Scheid & Hugo Mouquet & Niklas Feldhahn & Michael S. Seaman & Klara Velinzon & John Pietzsch & Rene G. Ott & Robert M. Anthony & Henry Zebroski & Arlene Hurley & Adhuna Phogat & Bimal Chak, 2009. "Broad diversity of neutralizing antibodies isolated from memory B cells in HIV-infected individuals," Nature, Nature, vol. 458(7238), pages 636-640, April.
- Rory Henderson & Brian E. Watts & Hieu N. Ergin & Kara Anasti & Robert Parks & Shi-Mao Xia & Ashley Trama & Hua-Xin Liao & Kevin O. Saunders & Mattia Bonsignori & Kevin Wiehe & Barton F. Haynes & S. M, 2019. "Selection of immunoglobulin elbow region mutations impacts interdomain conformational flexibility in HIV-1 broadly neutralizing antibodies," Nature Communications, Nature, vol. 10(1), pages 1-14, December.
- Alexander M Sevy & Tim M Jacobs & James E Crowe Jr. & Jens Meiler, 2015. "Design of Protein Multi-specificity Using an Independent Sequence Search Reduces the Barrier to Low Energy Sequences," PLOS Computational Biology, Public Library of Science, vol. 11(7), pages 1-23, July.
- Laura M. Walker & Michael Huber & Katie J. Doores & Emilia Falkowska & Robert Pejchal & Jean-Philippe Julien & Sheng-Kai Wang & Alejandra Ramos & Po-Ying Chan-Hui & Matthew Moyle & Jennifer L. Mitcham, 2011. "Broad neutralization coverage of HIV by multiple highly potent antibodies," Nature, Nature, vol. 477(7365), pages 466-470, September.
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