Mark A. Hallen - researchr alias

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Viewing Publication 1 - 6 from 6

2019

Protein design by provable algorithmsMark A. Hallen, Bruce Randall Donald. CACM, 62(10):76-84, 2019. [doi]

2018

OSPREY 3.0: Open-source protein redesign for you, with powerful new featuresMark A. Hallen, Jeffrey W. Martin, Adegoke Ojewole, Jonathan D. Jou, Anna U. Lowegard, Marcel S. Frenkel, Pablo Gainza, Hunter M. Nisonoff, Aditya Mukund, Siyu Wang, Graham T. Holt, David Zhou, Elizabeth Dowd, Bruce Randall Donald. jcc, 39(30):2494-2507, 2018. [doi]

2017

LUTE (Local Unpruned Tuple Expansion): Accurate Continuously Flexible Protein Design with General Energy Functions and Rigid Rotamer-Like EfficiencyMark A. Hallen, Jonathan D. Jou, Bruce Randall Donald. jcb, 24(6):536-546, 2017. [doi]

CATS (Coordinates of Atoms by Taylor Series): protein design with backbone flexibility in all locally feasible directionsMark A. Hallen, Bruce Randall Donald. bioinformatics, 33(14), 2017. [doi]

2016

comets (Constrained Optimization of Multistate Energies by Tree Search): A Provable and Efficient Protein Design Algorithm to Optimize Binding Affinity and Specificity with Respect to SequenceMark A. Hallen, Bruce Randall Donald. jcb, 23(5):311-321, 2016. [doi]

LUTE (Local Unpruned Tuple Expansion): Accurate Continuously Flexible Protein Design with General Energy Functions and Rigid-rotamer-like EfficiencyMark A. Hallen, Jonathan D. Jou, Bruce Randall Donald. recomb 2016: 122-136 [doi]

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