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Serverification of molecular modeling applications: the Rosetta Online Server that Includes Everyone (ROSIE).
Lyskov S, Chou FC, Conchúir SÓ, Der BS, Drew K, Kuroda D, Xu J, Weitzner BD, Renfrew PD, Sripakdeevong P, Borgo B, Havranek JJ, Kuhlman B, Kortemme T, Bonneau R, Gray JJ, Das R. Lyskov S, et al. Among authors: das r. PLoS One. 2013 May 22;8(5):e63906. doi: 10.1371/journal.pone.0063906. Print 2013. PLoS One. 2013. PMID: 23717507 Free PMC article.
Rosetta in CAPRI rounds 13-19.
Fleishman SJ, Corn JE, Strauch EM, Whitehead TA, Andre I, Thompson J, Havranek JJ, Das R, Bradley P, Baker D. Fleishman SJ, et al. Among authors: das r. Proteins. 2010 Nov 15;78(15):3212-8. doi: 10.1002/prot.22784. Proteins. 2010. PMID: 20597089 Free PMC article.
ROSETTA3: an object-oriented software suite for the simulation and design of macromolecules.
Leaver-Fay A, Tyka M, Lewis SM, Lange OF, Thompson J, Jacak R, Kaufman K, Renfrew PD, Smith CA, Sheffler W, Davis IW, Cooper S, Treuille A, Mandell DJ, Richter F, Ban YE, Fleishman SJ, Corn JE, Kim DE, Lyskov S, Berrondo M, Mentzer S, Popović Z, Havranek JJ, Karanicolas J, Das R, Meiler J, Kortemme T, Gray JJ, Kuhlman B, Baker D, Bradley P. Leaver-Fay A, et al. Among authors: das r. Methods Enzymol. 2011;487:545-74. doi: 10.1016/B978-0-12-381270-4.00019-6. Methods Enzymol. 2011. PMID: 21187238 Free PMC article.
Adding diverse noncanonical backbones to rosetta: enabling peptidomimetic design.
Drew K, Renfrew PD, Craven TW, Butterfoss GL, Chou FC, Lyskov S, Bullock BN, Watkins A, Labonte JW, Pacella M, Kilambi KP, Leaver-Fay A, Kuhlman B, Gray JJ, Bradley P, Kirshenbaum K, Arora PS, Das R, Bonneau R. Drew K, et al. Among authors: das r. PLoS One. 2013 Jul 15;8(7):e67051. doi: 10.1371/journal.pone.0067051. Print 2013. PLoS One. 2013. PMID: 23869206 Free PMC article.
Structure determination of noncanonical RNA motifs guided by ¹H NMR chemical shifts.
Sripakdeevong P, Cevec M, Chang AT, Erat MC, Ziegeler M, Zhao Q, Fox GE, Gao X, Kennedy SD, Kierzek R, Nikonowicz EP, Schwalbe H, Sigel RK, Turner DH, Das R. Sripakdeevong P, et al. Among authors: das r. Nat Methods. 2014 Apr;11(4):413-6. doi: 10.1038/nmeth.2876. Epub 2014 Mar 2. Nat Methods. 2014. PMID: 24584194 Free PMC article.
Modeling complex RNA tertiary folds with Rosetta.
Cheng CY, Chou FC, Das R. Cheng CY, et al. Among authors: das r. Methods Enzymol. 2015;553:35-64. doi: 10.1016/bs.mie.2014.10.051. Epub 2015 Feb 12. Methods Enzymol. 2015. PMID: 25726460
3,733 results