Parameters and determinants of responses to selection in antibody libraries
Author
Abstract
Suggested Citation
DOI: 10.1371/journal.pcbi.1008751
Download full text from publisher
References listed on IDEAS
- 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.
Most related items
These are the items that most often cite the same works as this one and are cited by the same works as this one.- Alexander M Sevy & Swetasudha Panda & James E Crowe Jr & Jens Meiler & Yevgeniy Vorobeychik, 2018. "Integrating linear optimization with structural modeling to increase HIV neutralization breadth," PLOS Computational Biology, Public Library of Science, vol. 14(2), pages 1-18, February.
- Joana Dias & Giulia Fabozzi & Slim Fourati & Xuejun Chen & Cuiping Liu & David R. Ambrozak & Amy Ransier & Farida Laboune & Jianfei Hu & Wei Shi & Kylie March & Anna A. Maximova & Stephen D. Schmidt &, 2024. "Administration of anti-HIV-1 broadly neutralizing monoclonal antibodies with increased affinity to Fcγ receptors during acute SHIVAD8-EO infection," Nature Communications, Nature, vol. 15(1), pages 1-18, December.
- Nicole A Doria-Rose & Han R Altae-Tran & Ryan S Roark & Stephen D Schmidt & Matthew S Sutton & Mark K Louder & Gwo-Yu Chuang & Robert T Bailer & Valerie Cortez & Rui Kong & Krisha McKee & Sijy O’Dell , 2017. "Mapping Polyclonal HIV-1 Antibody Responses via Next-Generation Neutralization Fingerprinting," PLOS Pathogens, Public Library of Science, vol. 13(1), pages 1-29, January.
- Anna Hake & Nico Pfeifer, 2017. "Prediction of HIV-1 sensitivity to broadly neutralizing antibodies shows a trend towards resistance over time," PLOS Computational Biology, Public Library of Science, vol. 13(10), pages 1-23, October.
- Cyril Planchais & Luis M. Molinos-Albert & Pierre Rosenbaum & Thierry Hieu & Alexia Kanyavuz & Dominique Clermont & Thierry Prazuck & Laurent Lefrou & Jordan D. Dimitrov & Sophie Hüe & Laurent Hocquel, 2023. "HIV-1 treatment timing shapes the human intestinal memory B-cell repertoire to commensal bacteria," Nature Communications, Nature, vol. 14(1), pages 1-17, December.
- Durgadevi Parthasarathy & Karunakar Reddy Pothula & Sneha Ratnapriya & Héctor Cervera Benet & Ruth Parsons & Xiao Huang & Salam Sammour & Katarzyna Janowska & Miranda Harris & Joseph Sodroski & Priyam, 2024. "Conformational flexibility of HIV-1 envelope glycoproteins modulates transmitted/founder sensitivity to broadly neutralizing antibodies," Nature Communications, Nature, vol. 15(1), pages 1-15, December.
- Jason Gorman & Crystal Sao-Fong Cheung & Zhijian Duan & Li Ou & Maple Wang & Xuejun Chen & Cheng Cheng & Andrea Biju & Yaping Sun & Pengfei Wang & Yongping Yang & Baoshan Zhang & Jeffrey C. Boyington , 2024. "Cleavage-intermediate Lassa virus trimer elicits neutralizing responses, identifies neutralizing nanobodies, and reveals an apex-situated site-of-vulnerability," Nature Communications, Nature, vol. 15(1), pages 1-16, December.
- Manhart, Michael & Haldane, Allan & Morozov, Alexandre V., 2012. "A universal scaling law determines time reversibility and steady state of substitutions under selection," Theoretical Population Biology, Elsevier, vol. 82(1), pages 66-76.
- Wen-Han Yu & Peng Zhao & Monia Draghi & Claudia Arevalo & Christina B Karsten & Todd J Suscovich & Bronwyn Gunn & Hendrik Streeck & Abraham L Brass & Michael Tiemeyer & Michael Seaman & John R Mascola, 2018. "Exploiting glycan topography for computational design of Env glycoprotein antigenicity," PLOS Computational Biology, Public Library of Science, vol. 14(4), pages 1-28, April.
- Bailey B. Banach & Sergei Pletnev & Adam S. Olia & Kai Xu & Baoshan Zhang & Reda Rawi & Tatsiana Bylund & Nicole A. Doria-Rose & Thuy Duong Nguyen & Ahmed S. Fahad & Myungjin Lee & Bob C. Lin & Tracy , 2023. "Antibody-directed evolution reveals a mechanism for enhanced neutralization at the HIV-1 fusion peptide site," Nature Communications, Nature, vol. 14(1), pages 1-17, December.
- Luis M. Molinos-Albert & Valérie Lorin & Valérie Monceaux & Sylvie Orr & Asma Essat & Jérémy Dufloo & Olivier Schwartz & Christine Rouzioux & Laurence Meyer & Laurent Hocqueloux & Asier Sáez-Cirión & , 2022. "Transient viral exposure drives functionally-coordinated humoral immune responses in HIV-1 post-treatment controllers," Nature Communications, Nature, vol. 13(1), pages 1-17, December.
- Hongjun Bai & Eric Lewitus & Yifan Li & Paul V. Thomas & Michelle Zemil & Mélanie Merbah & Caroline E. Peterson & Thujitha Thuraisamy & Phyllis A. Rees & Agnes Hajduczki & Vincent Dussupt & Bonnie Sli, 2024. "Contemporary HIV-1 consensus Env with AI-assisted redesigned hypervariable loops promote antibody binding," Nature Communications, Nature, vol. 15(1), pages 1-16, December.
- Craig A Magaret & David C Benkeser & Brian D Williamson & Bhavesh R Borate & Lindsay N Carpp & Ivelin S Georgiev & Ian Setliff & Adam S Dingens & Noah Simon & Marco Carone & Christopher Simpkins & Dav, 2019. "Prediction of VRC01 neutralization sensitivity by HIV-1 gp160 sequence features," PLOS Computational Biology, Public Library of Science, vol. 15(4), pages 1-35, April.
- Annemart Koornneef & Kanika Vanshylla & Gijs Hardenberg & Lucy Rutten & Nika M. Strokappe & Jeroen Tolboom & Jessica Vreugdenhil & Karin Feddes-de Boer & Aditya Perkasa & Sven Blokland & Judith A. Bur, 2024. "CoPoP liposomes displaying stabilized clade C HIV-1 Env elicit tier 2 multiclade neutralization in rabbits," Nature Communications, Nature, vol. 15(1), pages 1-16, December.
- Patrick Löffler & Samuel Schmitz & Enrico Hupfeld & Reinhard Sterner & Rainer Merkl, 2017. "Rosetta:MSF: a modular framework for multi-state computational protein design," PLOS Computational Biology, Public Library of Science, vol. 13(6), pages 1-24, June.
- Jingzhi Lou & Weiwen Liang & Lirong Cao & Inchi Hu & Shi Zhao & Zigui Chen & Renee Wan Yi Chan & Peter Pak Hang Cheung & Hong Zheng & Caiqi Liu & Qi Li & Marc Ka Chun Chong & Yexian Zhang & Eng-kiong , 2024. "Predictive evolutionary modelling for influenza virus by site-based dynamics of mutations," Nature Communications, Nature, vol. 15(1), pages 1-11, December.
- Fangzhu Zhao & Zachary T. Berndsen & Nuria Pedreño-Lopez & Alison Burns & Joel D. Allen & Shawn Barman & Wen-Hsin Lee & Srirupa Chakraborty & Sandrasegaram Gnanakaran & Leigh M. Sewall & Gabriel Ozoro, 2022. "Molecular insights into antibody-mediated protection against the prototypic simian immunodeficiency virus," Nature Communications, Nature, vol. 13(1), pages 1-16, December.
- Steve O'Hagan & Joshua Knowles & Douglas B Kell, 2012. "Exploiting Genomic Knowledge in Optimising Molecular Breeding Programmes: Algorithms from Evolutionary Computing," PLOS ONE, Public Library of Science, vol. 7(11), pages 1-14, November.
- Kun-Wei Chan & Christina C. Luo & Hong Lu & Xueling Wu & Xiang-Peng Kong, 2021. "A site of vulnerability at V3 crown defined by HIV-1 bNAb M4008_N1," Nature Communications, Nature, vol. 12(1), pages 1-12, 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.
Corrections
All material on this site has been provided by the respective publishers and authors. You can help correct errors and omissions. When requesting a correction, please mention this item's handle: RePEc:plo:pcbi00:1008751. See general information about how to correct material in RePEc.
If you have authored this item and are not yet registered with RePEc, we encourage you to do it here. This allows to link your profile to this item. It also allows you to accept potential citations to this item that we are uncertain about.
If CitEc recognized a bibliographic reference but did not link an item in RePEc to it, you can help with this form .
If you know of missing items citing this one, you can help us creating those links by adding the relevant references in the same way as above, for each refering item. If you are a registered author of this item, you may also want to check the "citations" tab in your RePEc Author Service profile, as there may be some citations waiting for confirmation.
For technical questions regarding this item, or to correct its authors, title, abstract, bibliographic or download information, contact: ploscompbiol (email available below). General contact details of provider: https://journals.plos.org/ploscompbiol/ .
Please note that corrections may take a couple of weeks to filter through the various RePEc services.