Paweł Gniewek
Paweł Gniewek
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Self-driven jamming in growing microbial populations
M Delarue, J Hartung, C Schreck, P Gniewek, L Hu, S Herminghaus, ...
Nature Physics, 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
Coarse-grained modeling of mucus barrier properties
P Gniewek, A Kolinski
Biophysical journal 102 (2), 195-200, 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 (2), 137-147, 2011
BioShell-Threading: versatile Monte Carlo package for protein 3D threading
P Gniewek, A Kolinski, A Kloczkowski, D Gront
BMC bioinformatics 15 (1), 1-8, 2014
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), 05B616, 2012
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, 127-157, 2011
Coarse-grained Monte Carlo simulations of mucus: structure, dynamics, and thermodynamics
P Gniewek, A Kolinski
Biophysical journal 99 (11), 3507-3516, 2010
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
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
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
Note: A simple picture of subdiffusive polymer motion from stochastic simulations
P Gniewek, A Kolinski
The Journal of chemical physics 134 (5), 056101, 2011
Fluid flow through packings of elastic shells
P Gniewek, O Hallatschek
Physical Review E 99 (2), 023103, 2019
Biomechanical feedback strengthens jammed cellular packings
P Gniewek, CF Schreck, O Hallatschek
Physical Review Letters 122 (20), 208102, 2019
Mechanics of Confined Microbial Populations
P Gniewek
University of California, Berkeley, 2018
Designing an Automatic Pipeline for Protein Structure Prediction
S Kmiecik, M Jamroz, A Zwolinska, P Gniewek, A Kolinski
From Computational Biophysics to Systems Biology (CBSB08) 40, 105-108, 2008
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, ...
International Conference on Artificial Intelligence and Soft Computing, 626-635, 2020
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