日期:
2020 年 — 2026 年
2020
2021
2022
2023
2024
2025
2026
影响因子:

Applying computational protein design to therapeutic antibody discovery - current state and perspectives

将计算蛋白质设计应用于治疗性抗体发现——现状与展望

Bielska, Weronika; Jaszczyszyn, Igor; Dudzic, Pawel; Janusz, Bartosz; Chomicz, Dawid; Wrobel, Sonia; Greiff, Victor; Feehan, Ryan; Adolf-Bryfogle, Jared; Krawczyk, Konrad

Complete combinatorial mutational enumeration of a protein functional site enables sequence-landscape mapping and identifies highly-mutated variants that retain activity.

对蛋白质功能位点进行完整的组合突变枚举,可以绘制序列景观图,并识别保留活性的高度突变变体

Colom Mireia SolÃ, Vučinić Jelena, Adolf-Bryfogle Jared, Bowman James W, Verel Sébastien, Moczygemba Isabelle, Schiex Thomas, Simoncini David, Bahl Christopher D

Growing Glycans in Rosetta: Accurate de novo glycan modeling, density fitting, and rational sequon design

在 Rosetta 中构建聚糖:精确的从头聚糖建模、密度拟合和合理的序列设计

Adolf-Bryfogle, Jared; Labonte, Jason W; Kraft, John C; Shapovalov, Maxim; Raemisch, Sebastian; Lütteke, Thomas; DiMaio, Frank; Bahl, Christopher D; Pallesen, Jesper; King, Neil P; Gray, Jeffrey J; Kulp, Daniel W; Schief, William R

Corrigendum to "Computational design of nanomolar-binding antibodies specific to multiple SARS-CoV-2 variants by engineering a specificity switch of antibody 80R using RosettaAntibodyDesign (RAbD) results in potential generalizable therapeutic antibodies for novel SARS-CoV-2 virus" [Heliyon 9(4) (April 2023) e15032]

对“利用 RosettaAntibodyDesign (RAbD) 对抗体 80R 进行特异性转换,计算设计针对多种 SARS-CoV-2 变体的纳摩尔结合抗体,从而获得可用于新型 SARS-CoV-2 病毒的潜在通用治疗性抗体”的更正 [Heliyon 9(4) (2023 年 4 月) e15032]

Hernandez, Nancy E; Jankowski, Wojciech; Frick, Rahel; Kelow, Simon P; Lubin, Joseph H; Simhadri, Vijaya; Adolf-Bryfogle, Jared; Khare, Sagar D; Dunbrack, Roland L Jr; Gray, Jeffrey J; Sauna, Zuben E

Computational design of nanomolar-binding antibodies specific to multiple SARS-CoV-2 variants by engineering a specificity switch of antibody 80R using RosettaAntibodyDesign (RAbD) results in potential generalizable therapeutic antibodies for novel SARS-CoV-2 virus

通过使用 RosettaAntibodyDesign (RAbD) 设计抗体 80R 的特异性开关,计算设计针对多种 SARS-CoV-2 变体的纳摩尔结合抗体,从而为新型 SARS-CoV-2 病毒提供潜在的可推广治疗性抗体

Nancy E Hernandez, Wojciech Jankowski, Rahel Frick, Simon P Kelow, Joseph H Lubin, Vijaya Simhadri, Jared Adolf-Bryfogle, Sagar D Khare, Roland L Dunbrack Jr, Jeffrey J Gray, Zuben E Sauna

Complete Combinatorial Mutational Enumeration of a protein functional site enables sequence-landscape mapping and identifies highly-mutated variants that retain activity

蛋白质功能位点的完整组合突变枚举可以实现序列景观映射,并识别保留活性的高度突变变体

Mireia Solà Colom, Jelena Vucinic, Jared Adolf-Bryfogle, James W Bowman, Sébastien Verel, Isabelle Moczygemba, Thomas Schiex, David Simoncini, Christopher D Bahl

Nucleic acid delivery of immune-focused SARS-CoV-2 nanoparticles drives rapid and potent immunogenicity capable of single-dose protection

利用核酸递送免疫靶向SARS-CoV-2纳米颗粒,可快速有效地诱导免疫反应,实现单剂量保护。

Kylie M Konrath ,Kevin Liaw ,Yuanhan Wu ,Xizhou Zhu ,Susanne N Walker ,Ziyang Xu ,Katherine Schultheis ,Neethu Chokkalingam ,Himanshi Chawla ,Jianqiu Du ,Nicholas J Tursi ,Alan Moore ,Jared Adolf-Bryfogle ,Mansi Purwar ,Emma L Reuschel ,Drew Frase ,Matthew Sullivan ,Benjamin Fry ,Igor Maricic ,Viviane M Andrade ,Christel Iffland ,Max Crispin ,Kate E Broderick ,Laurent M P F Humeau ,Ami Patel ,Trevor R F Smith ,Jesper Pallesen ,David B Weiner ,Daniel W Kulp

Computational design of a neutralizing antibody with picomolar binding affinity for all concerning SARS-CoV-2 variants

对所有相关 SARS-CoV-2 变体具有皮摩尔结合亲和力的中和抗体的计算设计

Bo-Seong Jeong, Jeong Seok Cha, Insu Hwang, Uijin Kim, Jared Adolf-Bryfogle, Brian Coventry, Hyun-Soo Cho, Kyun-Do Kim, Byung-Ha Oh

Ensuring scientific reproducibility in bio-macromolecular modeling via extensive, automated benchmarks

通过广泛的自动化基准测试确保生物大分子建模的科学可重复性

Koehler Leman, Julia; Lyskov, Sergey; Lewis, Steven M; Adolf-Bryfogle, Jared; Alford, Rebecca F; Barlow, Kyle; Ben-Aharon, Ziv; Farrell, Daniel; Fell, Jason; Hansen, William A; Harmalkar, Ameya; Jeliazkov, Jeliazko; Kuenze, Georg; Krys, Justyna D; Ljubetič, Ajasja; Loshbaugh, Amanda L; Maguire, Jack; Moretti, Rocco; Mulligan, Vikram Khipple; Nance, Morgan L; Nguyen, Phuong T; Ó Conchúir, Shane; Roy Burman, Shourya S; Samanta, Rituparna; Smith, Shannon T; Teets, Frank; Tiemann, Johanna K S; Watkins, Andrew; Woods, Hope; Yachnin, Brahm J; Bahl, Christopher D; Bailey-Kellogg, Chris; Baker, David; Das, Rhiju; DiMaio, Frank; Khare, Sagar D; Kortemme, Tanja; Labonte, Jason W; Lindorff-Larsen, Kresten; Meiler, Jens; Schief, William; Schueler-Furman, Ora; Siegel, Justin B; Stein, Amelie; Yarov-Yarovoy, Vladimir; Kuhlman, Brian; Leaver-Fay, Andrew; Gront, Dominik; Gray, Jeffrey J; Bonneau, Richard

CoV3D: a database of high resolution coronavirus protein structures

CoV3D:高分辨率冠状病毒蛋白结构数据库

Gowthaman, Ragul; Guest, Johnathan D; Yin, Rui; Adolf-Bryfogle, Jared; Schief, William R; Pierce, Brian G