Self-driven jamming in growing microbial populations M Delarue, J Hartung, C Schreck, P Gniewek, L Hu, S Herminghaus, ... Nature Physics, 2016 | 163 | 2016 |
Multibody coarse‐grained potentials for native structure recognition and quality assessment of protein models P Gniewek, SP Leelananda, A Kolinski, RL Jernigan, A Kloczkowski Proteins: Structure, Function, and Bioinformatics 79 (6), 1923-1929, 2011 | 52 | 2011 |
AI is a viable alternative to high throughput screening: a 318-target study Scientific reports 14 (1), 7526, 2024 | 34 | 2024 |
Coarse-grained modeling of mucus barrier properties P Gniewek, A Kolinski Biophysical journal 102 (2), 195-200, 2012 | 31 | 2012 |
Elastic network normal modes provide a basis for protein structure refinement P Gniewek, A Kolinski, RL Jernigan, A Kloczkowski The Journal of Chemical Physics 136 (19), 2012 | 28 | 2012 |
Free energies for coarse-grained proteins by integrating multibody statistical contact potentials with entropies from elastic network models MT Zimmermann, SP Leelananda, P Gniewek, Y Feng, RL Jernigan, ... Journal of structural and functional genomics 12, 137-147, 2011 | 28 | 2011 |
Biomechanical feedback strengthens jammed cellular packings P Gniewek, CF Schreck, O Hallatschek Physical Review Letters 122 (20), 208102, 2019 | 21 | 2019 |
BioShell-Threading: versatile Monte Carlo package for protein 3D threading P Gniewek, A Kolinski, A Kloczkowski, D Gront BMC bioinformatics 15, 1-8, 2014 | 21 | 2014 |
Coarse-grained Monte Carlo simulations of mucus: structure, dynamics, and thermodynamics P Gniewek, A Kolinski Biophysical journal 99 (11), 3507-3516, 2010 | 16 | 2010 |
Statistical contact potentials in protein coarse-grained modeling: from pair to multi-body potentials SP Leelananda, Y Feng, P Gniewek, A Kloczkowski, RL Jernigan Multiscale Approaches to Protein Modeling: Structure Prediction, Dynamics …, 2011 | 14 | 2011 |
Learning physics confers pose-sensitivity in structure-based virtual screening P Gniewek, B Worley, K Stafford, H Bedem, B Anderson NeurIPS 2021 Machine Learning in Structural Biology Workshop, 2021 | 12 | 2021 |
Instance segmentation of densely packed cells using a hybrid model of U-net and mask R-CNN T Konopczyński, R Heiman, P Woźnicki, P Gniewek, MC Duvernoy, ... Artificial Intelligence and Soft Computing: 19th International Conference …, 2020 | 11 | 2020 |
An efficient graph generative model for navigating ultra-large combinatorial synthesis libraries A Pedawi, P Gniewek, C Chang, B Anderson, H van den Bedem Advances in Neural Information Processing Systems 35, 8731-8745, 2022 | 10 | 2022 |
How noise in force fields can affect the structural refinement of protein models? P Gniewek, A Kolinski, RL Jernigan, A Kloczkowski Proteins: Structure, Function, and Bioinformatics 80 (2), 335-341, 2012 | 9 | 2012 |
Fluid flow through packings of elastic shells P Gniewek, O Hallatschek Physical Review E 99 (2), 023103, 2019 | 7 | 2019 |
Optimization of profile-to-profile alignment parameters for one-dimensional threading P Gniewek, A Kolinski, D Gront Journal of Computational Biology 19 (7), 879-886, 2012 | 5 | 2012 |
Note: A simple picture of subdiffusive polymer motion from stochastic simulations P Gniewek, A Kolinski The Journal of chemical physics 134 (5), 2011 | 5 | 2011 |
Immunological implications of a structural analysis of two different porcine IL1β proteins expressed in macrophages and embryos AR Katebi, P Gniewek, M Zimmermann, S Saraswathi, Z Gong, CK Tuggle, ... Proceedings of the First ACM International Conference on Bioinformatics and …, 2010 | 5 | 2010 |
Mechanics of Confined Microbial Populations P Gniewek University of California, Berkeley, 2018 | 1 | 2018 |
CHARACTERIZATION OF INTERACTIONS BETWEEN COMPOUNDS AND POLYMERS USING NEGATIVE POSE DATA AND MODEL CONDITIONING P Gniewek, B Worley, B Anderson, K Stafford, M Mysinger US Patent App. 18/697,356, 2024 | | 2024 |