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F. Marty Ytreberg
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Year
Resolution exchange simulation
E Lyman, FM Ytreberg, DM Zuckerman
Physical review letters 96 (2), 28105, 2006
2242006
Comparison of free energy methods for molecular systems
FM Ytreberg, RH Swendsen, DM Zuckerman
The Journal of chemical physics 125 (18), 184114, 2006
1552006
Single-ensemble nonequilibrium path-sampling estimates of free energy differences
FM Ytreberg, DM Zuckerman
The Journal of chemical physics 120 (23), 10876-10879, 2004
1182004
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
842004
Absolute FKBP binding affinities obtained via nonequilibrium unbinding simulations
FM Ytreberg
The Journal of chemical physics 130 (16), 2009
632009
Calculated properties of field-induced aggregates in ferrofluids
FM Ytreberg, SR McKay
Physical Review E 61 (4), 4107, 2000
502000
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
462012
Simple estimation of absolute free energies for biomolecules
FM Ytreberg, DM Zuckerman
The Journal of chemical physics 124 (10), 104105, 2006
452006
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
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
332011
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
302012
Effect of gold nanoparticle conjugation on peptide dynamics and structure
KH Lee, FM Ytreberg
Entropy 14 (4), 630-641, 2012
292012
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
292011
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
262018
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
252016
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
252013
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
232011
Understanding Bernoulli’s principle through simulations
BE Faulkner, FM Ytreberg
American Journal of Physics 79 (2), 214-216, 2011
232011
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
212019
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
182020
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