Glycosylator: a Python framework for the rapid modeling of glycans von Lemmin, Thomas, Soto, Cinque

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Structure of the amantadine binding site of influenza M2 proton channels in lipid bilayers von Schmidt-Rohr, Klaus, Wang, Jun, Hong, Mei, DeGrado, William F, Cady, Sarah D, Soto, Cinque S

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High frequency of shared clonotypes in human B cell receptor repertoires von Soto, Cinque, Bombardi, Robin G., Branchizio, Andre, Kose, Nurgun, Matta, Pranathi, Sevy, Alexander M., Sinkovits, Robert S., Gilchuk, Pavlo, Finn, Jessica A., Crowe, James E.

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Structural basis for the function and inhibition of an influenza virus proton channel von Stouffer, Amanda L., Acharya, Rudresh, Salom, David, Levine, Anna S., Di Costanzo, Luigi, Soto, Cinque S., Tereshko, Valentina, Nanda, Vikas, Stayrook, Steven, DeGrado, William F.

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Assembly of the transmembrane domain of E. coli PhoQ histidine kinase: implications for signal transduction from molecular simulations von Lemmin, Thomas, Soto, Cinque S, Clinthorne, Graham, DeGrado, William F, Dal Peraro, Matteo

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Structure-Based Design of a Fusion Glycoprotein Vaccine for Respiratory Syncytial Virus von McLellan, Jason S., Chen, Man, Joyce, M. Gordon, Sastry, Mallika, Stewart-Jones, Guillaume B. E., Yang, Yongping, Zhang, Baoshan, Chen, Lei, Srivatsan, Sanjay, Zheng, Anqi, Zhou, Tongqing, Graepel, Kevin W., Kumar, Azad, Moin, Syed, Boyington, Jeffrey C., Chuang, Gwo-Yu, Soto, Cinque, Baxa, Ulrich, Bakker, Arjen Q., Spits, Hergen, Beaumont, Tim, Zheng, Zizheng, Xia, Ningshao, Ko, Sung-Youl, Todd, John-Paul, Rao, Srinivas, Graham, Barney S., Kwong, Peter D.

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Fusion peptide of HIV-1 as a site of vulnerability to neutralizing antibody von Kong, Rui, Xu, Kai, Zhou, Tongqing, Acharya, Priyamvada, Lemmin, Thomas, Liu, Kevin, Ozorowski, Gabriel, Soto, Cinque, Taft, Justin D., Bailer, Robert T., Cale, Evan M., Chen, Lei, Choi, Chang W., Chuang, Gwo-Yu, Doria-Rose, Nicole A., Druz, Aliaksandr, Georgiev, Ivelin S., Gorman, Jason, Huang, Jinghe, Joyce, M. Gordon, Louder, Mark K., Ma, Xiaochu, McKee, Krisha, O'Dell, Sijy, Pancera, Marie, Yang, Yongping, Blanchard, Scott C., Mothes, Walther, Burton, Dennis R., Koff, Wayne C., Connors, Mark, Ward, Andrew B., Kwong, Peter D., Mascola, John R.

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Microsecond Dynamics and Network Analysis of the HIV-1 SOSIP Env Trimer Reveal Collective Behavior and Conserved Microdomains of the Glycan Shield von Lemmin, Thomas, Soto, Cinque, Stuckey, Jonathan, Kwong, Peter D.

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Loop modeling: Sampling, filtering, and scoring von Soto, Cinque S., Fasnacht, Marc, Zhu, Jiang, Forrest, Lucy, Honig, Barry

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Biological controls for standardization and interpretation of adaptive immune receptor repertoire profiling von Trück, Johannes, Eugster, Anne, Barennes, Pierre, Tipton, Christopher M, Luning Prak, Eline T, Bagnara, Davide, Soto, Cinque, Sherkow, Jacob S, Payne, Aimee S, Lefranc, Marie-Paule, Farmer, Andrew, Bostick, Magnolia, Mariotti-Ferrandiz, Encarnita

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Role of humoral immunity against hepatitis B virus core antigen in the pathogenesis of acute liver failure von Chen, Zhaochun, Diaz, Giacomo, Pollicino, Teresa, Zhao, Huaying, Engle, Ronald E., Schuck, Peter, Shen, Chen-Hsiang, Zamboni, Fausto, Long, Zhifeng, Kabat, Juraj, De Battista, Davide, Bock, Kevin W., Moore, Ian N., Wollenberg, Kurt, Soto, Cinque, Govindarajan, Sugantha, Kwong, Peter D., Kleiner, David E., Purcell, Robert H., Farci, Patrizia

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Structural and dynamic mechanisms for the function and inhibition of the M2 proton channel from influenza A virus von Wang, Jun, Qiu, Jade Xiaoyan, Soto, Cinque, DeGrado, William F

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Evaluating Conformational Free Energies: The Colony Energy and Its Application to the Problem of Loop Prediction von Xiang, Zhexin, Soto, Cinque S., Honig, Barry

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High Frequency of Shared Clonotypes in Human T Cell Receptor Repertoires von Soto, Cinque, Bombardi, Robin G., Kozhevnikov, Morgan, Sinkovits, Robert S., Chen, Elaine C., Branchizio, Andre, Kose, Nurgun, Day, Samuel B., Pilkinton, Mark, Gujral, Madhusudan, Mallal, Simon, Crowe, James E.

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Iterative structure-based improvement of a fusion-glycoprotein vaccine against RSV von Joyce, M Gordon, Zhang, Baoshan, Ou, Li, Chen, Man, Chuang, Gwo-Yu, Druz, Aliaksandr, Kong, Wing-Pui, Lai, Yen-Ting, Rundlet, Emily J, Tsybovsky, Yaroslav, Yang, Yongping, Georgiev, Ivelin S, Guttman, Miklos, Lees, Christopher R, Pancera, Marie, Sastry, Mallika, Soto, Cinque, Stewart-Jones, Guillaume B E, Thomas, Paul V, Van Galen, Joseph G, Baxa, Ulrich, Lee, Kelly K, Mascola, John R, Graham, Barney S, Kwong, Peter D

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Structural basis for broad neutralization of ebolaviruses by an antibody targeting the glycoprotein fusion loop von Janus, Benjamin M., van Dyk, Nydia, Zhao, Xuelian, Howell, Katie A., Soto, Cinque, Aman, M. Javad, Li, Yuxing, Fuerst, Thomas R., Ofek, Gilad

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PyIR: a scalable wrapper for processing billions of immunoglobulin and T cell receptor sequences using IgBLAST von Soto, Cinque, Finn, Jessica A, Willis, Jordan R, Day, Samuel B, Sinkovits, Robert S, Jones, Taylor, Schmitz, Samuel, Meiler, Jens, Branchizio, Andre, Crowe, Jr, James E

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Immune repertoire fingerprinting by principal component analysis reveals shared features in subject groups with common exposures von Sevy, Alexander M, Soto, Cinque, Bombardi, Robin G, Meiler, Jens, Crowe, Jr, James E

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Computational identification of HCV neutralizing antibodies with a common HCDR3 disulfide bond motif in the antibody repertoires of infected individuals von Bozhanova, Nina G., Flyak, Andrew I., Brown, Benjamin P., Ruiz, Stormy E., Salas, Jordan, Rho, Semi, Bombardi, Robin G., Myers, Luke, Soto, Cinque, Bailey, Justin R., Crowe, James E., Bjorkman, Pamela J., Meiler, Jens

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Human-likeness of antibody biologics determined by back-translation and comparison with large antibody variable gene repertoires von Schmitz, Samuel, Soto, Cinque, Crowe, Jr, James E, Meiler, Jens

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