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F. Marty Ytreberg
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Resolution exchange simulation
E Lyman, FM Ytreberg, DM Zuckerman
Physical review letters 96 (2), 28105, 2006
2342006
Comparison of free energy methods for molecular systems
FM Ytreberg, RH Swendsen, DM Zuckerman
The Journal of chemical physics 125 (18), 2006
1592006
Single-ensemble nonequilibrium path-sampling estimates of free energy differences
FM Ytreberg, DM Zuckerman
The Journal of chemical physics 120 (23), 10876-10879, 2004
1192004
Efficient use of nonequilibrium measurement to estimate free energy differences for molecular systems
FM Ytreberg, DM Zuckerman
Journal of computational chemistry 25 (14), 1749-1759, 2004
852004
Absolute FKBP binding affinities obtained via nonequilibrium unbinding simulations
FM Ytreberg
The Journal of chemical physics 130 (16), 2009
662009
Understanding the structural ensembles of a highly extended disordered protein
GW Daughdrill, S Kashtanov, A Stancik, SE Hill, G Helms, M Muschol, ...
Molecular BioSystems 8 (1), 308-319, 2012
512012
Calculated properties of field-induced aggregates in ferrofluids
FM Ytreberg, SR McKay
Physical Review E 61 (4), 4107, 2000
512000
Simple estimation of absolute free energies for biomolecules
FM Ytreberg, DM Zuckerman
The Journal of chemical physics 124 (10), 2006
492006
Reducing the bias and uncertainty of free energy estimates by using regression to fit thermodynamic integration data
C Shyu, FM Ytreberg
Journal of computational chemistry 30 (14), 2297-2304, 2009
412009
Understanding Bernoulli’s principle through simulations
BE Faulkner, FM Ytreberg
American Journal of Physics 79 (2), 214-216, 2011
382011
C5‐Functionalized DNA, LNA, and α‐L‐LNA: Positional Control of Polarity‐Sensitive Fluorophores Leads to Improved SNP‐Typing
ME Østergaard, P Kumar, B Baral, DC Guenther, BA Anderson, ...
Chemistry–A European Journal 17 (11), 3157-3165, 2011
372011
Fast calculation of protein–protein binding free energies using umbrella sampling with a coarse-grained model
JS Patel, FM Ytreberg
Journal of chemical theory and computation 14 (2), 991-997, 2018
352018
Effect of gold nanoparticle conjugation on peptide dynamics and structure
KH Lee, FM Ytreberg
Entropy 14 (4), 630-641, 2012
342012
A novel mouse Dscam mutation inhibits localization and shedding of DSCAM
RD Schramm, S Li, BS Harris, RP Rounds, RW Burgess, FM Ytreberg, ...
PloS one 7 (12), e52652, 2012
332012
Initiating a watch list for Ebola virus antibody escape mutations
CR Miller, EL Johnson, AZ Burke, KP Martin, TA Miura, HA Wichman, ...
PeerJ 4, e1674, 2016
322016
Predicting the viability of beta-lactamase: How folding and binding free energies correlate with beta-lactamase fitness
J Yang, N Naik, JS Patel, CS Wylie, W Gu, J Huang, FM Ytreberg, MT Naik, ...
PloS one 15 (5), e0233509, 2020
272020
Impact of the K24N mutation on the transactivation domain of p53 and its binding to murine double‐minute clone 2
YA Zhan, H Wu, AT Powell, GW Daughdrill, FM Ytreberg
Proteins: Structure, Function, and Bioinformatics 81 (10), 1738-1747, 2013
272013
First-step mutations for adaptation at elevated temperature increase capsid stability in a virus
KH Lee, CR Miller, AC Nagel, HA Wichman, P Joyce, FM Ytreberg
PLoS One 6 (9), e25640, 2011
272011
Computational estimation of rainbow trout estrogen receptor binding affinities for environmental estrogens
C Shyu, TD Cavileer, JJ Nagler, FM Ytreberg
Toxicology and applied pharmacology 250 (3), 322-326, 2011
252011
Expanding the watch list for potential Ebola virus antibody escape mutations
JS Patel, CJ Quates, EL Johnson, FM Ytreberg
PloS one 14 (3), e0211093, 2019
232019
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Artikelen 1–20