On the Validity of Evolutionary Models with Site-Specific Parameters

by Scheffler, Konrad, Murrell, Ben, Kosakovsky Pond, Sergei L.
Published 2014

Modeling HIV-1 Drug Resistance as Episodic Directional Selection

by Murrell, Ben, de Oliveira, Tulio, Seebregts, Chris, Kosakovsky Pond, Sergei L., Scheffler, Konrad
Published 2012

Detecting Individual Sites Subject to Episodic Diversifying Selection

by Murrell, Ben, Wertheim, Joel O., Moola, Sasha, Weighill, Thomas, Scheffler, Konrad, Kosakovsky Pond, Sergei L.
Published 2012

Seminal Shedding of CMV and HIV Transmission among Men Who Have Sex with Men

by Gianella, Sara, Scheffler, Konrad, Mehta, Sanjay R., Little, Susan J., Freitas, Lorri, Morris, Sheldon R., Smith, Davey M.
Published 2015

Non-Negative Matrix Factorization for Learning Alignment-Specific Models of Protein Evolution

by Murrell, Ben, Weighill, Thomas, Buys, Jan, Ketteringham, Robert, Moola, Sasha, Benade, Gerdus, du Buisson, Lise, Kaliski, Daniel, Hands, Tristan, Scheffler, Konrad
Published 2011

Compartmentalized HIV rebound in the central nervous system after interruption of antiretroviral therapy

by Gianella, Sara, Kosakovsky Pond, Sergei L., Oliveira, Michelli F., Scheffler, Konrad, Strain, Matt C., De la Torre, Antonio, Letendre, Scott, Smith, Davey M., Ellis, Ronald J.
Published 2016

Comparative Analysis of Cell-Associated HIV DNA Levels in Cerebrospinal Fluid and Peripheral Blood by Droplet Digital PCR

by de Oliveira, Michelli Faria, Gianella, Sara, Letendre, Scott, Scheffler, Konrad, Kosakovsky Pond, Sergei L., Smith, Davey M., Strain, Matt, Ellis, Ronald J.
Published 2015

IDEPI: Rapid Prediction of HIV-1 Antibody Epitopes and Other Phenotypic Features from Sequence Data Using a Flexible Machine Learning Platform

by Hepler, N. Lance, Scheffler, Konrad, Weaver, Steven, Murrell, Ben, Richman, Douglas D., Burton, Dennis R., Poignard, Pascal, Smith, Davey M., Kosakovsky Pond, Sergei L.
Published 2014

Comprehensive Sieve Analysis of Breakthrough HIV-1 Sequences in the RV144 Vaccine Efficacy Trial

by Edlefsen, Paul T., Rolland, Morgane, Hertz, Tomer, Tovanabutra, Sodsai, Gartland, Andrew J., deCamp, Allan C., Magaret, Craig A., Ahmed, Hasan, Gottardo, Raphael, Juraska, Michal, McCoy, Connor, Larsen, Brendan B., Sanders-Buell, Eric, Carrico, Chris, Menis, Sergey, Bose, Meera, Arroyo, Miguel A., O’Connell, Robert J., Nitayaphan, Sorachai, Pitisuttithum, Punnee, Kaewkungwal, Jaranit, Rerks-Ngarm, Supachai, Robb, Merlin L., Kirys, Tatsiana, Georgiev, Ivelin S., Kwong, Peter D., Scheffler, Konrad, Pond, Sergei L. Kosakovsky, Carlson, Jonathan M., Michael, Nelson L., Schief, William R., Mullins, James I., Kim, Jerome H., Gilbert, Peter B.
Published 2015