Structure-guided forcefield optimization

by Song, Yifan, Tyka, Michael, Leaver-Fay, Andrew, Thompson, James, Baker, David
Published 2011

Automated structure refinement of macromolecular assemblies from cryo-EM maps using Rosetta

by Wang, Ray Yu-Ruei, Song, Yifan, Barad, Benjamin A, Cheng, Yifan, Fraser, James S, DiMaio, Frank
Published 2016

Massively parallel determination and modeling of endonuclease substrate specificity

by Thyme, Summer B., Song, Yifan, Brunette, T. J., Szeto, Mindy D., Kusak, Lara, Bradley, Philip, Baker, David
Published 2014

Atomic accuracy models from 4.5 Å cryo-electron microscopy data with density-guided iterative local refinement

by DiMaio, Frank, Song, Yifan, Li, Xueming, Brunner, Matthias J., Xu, Chunfu, Conticello, Vincent, Egelman, Edward, Marlovits, Thomas, Cheng, Yifan, Baker, David
Published 2015

Accurate de novo design of hyperstable constrained peptides

by Bhardwaj, Gaurav, Mulligan, Vikram Khipple, Bahl, Christopher D., Gilmore, Jason M., Harvey, Peta J., Cheneval, Olivier, Buchko, Garry W., Pulavarti, Surya V.S.R.K., Kaas, Quentin, Eletsky, Alexander, Huang, Po-Ssu, Johnsen, William A., Greisen, Per, Rocklin, Gabriel J., Song, Yifan, Linsky, Thomas W., Watkins, Andrew, Rettie, Stephen A., Xu, Xianzhong, Carter, Lauren P., Bonneau, Richard, Olson, James M., Coutsias, Evangelos, Correnti, Colin E., Szyperski, Thomas, Craik, David J., Baker, David
Published 2016