Amarda Shehu
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Principles and overview of sampling methods for modeling macromolecular structure and dynamics
T Maximova, R Moffatt, B Ma, R Nussinov, A Shehu
PLoS computational biology 12 (4), e1004619, 2016
Modeling protein conformational ensembles: from missing loops to equilibrium fluctuations
A Shehu, C Clementi, LE Kavraki
Proteins: Structure, Function, and Bioinformatics 65 (1), 164-179, 2006
Deep learning improves antimicrobial peptide recognition
D Veltri, U Kamath, A Shehu
Bioinformatics 34 (16), 2740-2747, 2018
Multiscale characterization of protein conformational ensembles
A Shehu, LE Kavraki, C Clementi
Proteins: Structure, Function, and Bioinformatics 76 (4), 837-851, 2009
Guiding the search for native-like protein conformations with an ab-initio tree-based exploration
A Shehu, B Olson
The International Journal of Robotics Research 29 (8), 1106-1127, 2010
Are nicotinic acetylcholine receptors coupled to G proteins?
N Kabbani, JC Nordman, BA Corgiat, DP Veltri, A Shehu, VA Seymour, ...
Bioessays 35 (12), 1025-1034, 2013
Multi-objective stochastic search for sampling local minima in the protein energy surface
B Olson, A Shehu
Proceedings of the International Conference on Bioinformatics, Computational†…, 2013
Menthol binding and inhibition of α7-nicotinic acetylcholine receptors
A Ashoor, JC Nordman, D Veltri, KHS Yang, L Al Kury, Y Shuba, ...
PloS one 8 (7), e67674, 2013
Mapping the conformation space of wildtype and mutant H-Ras with a memetic, cellular, and multiscale evolutionary algorithm
R Clausen, B Ma, R Nussinov, A Shehu
PLoS Comput Biol 11 (9), e1004470, 2015
Effective automated feature construction and selection for classification of biological sequences
U Kamath, K De Jong, A Shehu
PloS one 9 (7), e99982, 2014
Probabilistic search and optimization for protein energy landscapes
A Shehu, S Aluru, A Singh
Handbook of Computational Molecular Biology, 2013
Restriction versus guidance in protein structure prediction
JA Hegler, J Lštzer, A Shehu, C Clementi, PG Wolynes
Proceedings of the National Academy of Sciences 106 (36), 15302-15307, 2009
Evolutionary-inspired probabilistic search for enhancing sampling of local minima in the protein energy surface
BS Olson, A Shehu
Proteome Science 10 (1), 1-16, 2012
Basin Hopping as a General and Versatile Optimization Framework for the Characterization of Biological Macromolecules.
B Olson, I Hashmi, K Molloy, A Shehu
Advances in Artificial Intelligence (16877470), 2012
Probabilistic search and energy guidance for biased decoy sampling in ab initio protein structure prediction
K Molloy, S Saleh, A Shehu
IEEE/ACM transactions on computational biology and bioinformatics 10 (5†…, 2013
On the characterization of protein native state ensembles
A Shehu, LE Kavraki, C Clementi
Biophysical Journal 92 (5), 1503-1511, 2007
Off-lattice protein structure prediction with homologous crossover
B Olson, K De Jong, A Shehu
Proceedings of the 15th annual conference on Genetic and evolutionary†…, 2013
An evolutionary algorithm approach for feature generation from sequence data and its application to DNA splice site prediction
U Kamath, J Compton, R Islamaj-Doğan, KA De Jong, A Shehu
IEEE/ACM Transactions on Computational Biology and Bioinformatics 9 (5†…, 2012
Modeling structures and motions of loops in protein molecules
A Shehu, LE Kavraki
Entropy 14 (2), 252-290, 2012
In search of the protein native state with a probabilistic sampling approach
B Olson, K Molloy, A Shehu
Journal of Bioinformatics and Computational Biology 9 (03), 383-398, 2011
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