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2017
Biography of Klaus Schulten
Amaro, R. E., Villa, E. & Luthey-Schulten, Z., Apr 20 2017, In: Journal of Physical Chemistry B. 121, 15, 1 p.Research output: Contribution to journal › Editorial › peer-review
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2016
Evaluation of emerging energy-efficient heterogeneous computing platforms for biomolecular and cellular simulation workloads
Stone, J. E., Hallock, M. J., Phillips, J. C., Peterson, J. R., Luthey-Schulten, Z. A. & Schulten, K. J., Jul 18 2016, Proceedings - 2016 IEEE 30th International Parallel and Distributed Processing Symposium, IPDPS 2016. Institute of Electrical and Electronics Engineers Inc., p. 89-100 12 p. 7529854. (Proceedings - 2016 IEEE 30th International Parallel and Distributed Processing Symposium, IPDPS 2016).Research output: Chapter in Book/Report/Conference proceeding › Conference contribution
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2017
Role of Electrostatics in Protein-RNA Binding: The Global vs the Local Energy Landscape
Ghaemi, Z., Guzman, I., Gnutt, D., Luthey-Schulten, Z. & Gruebele, M., Sep 14 2017, In: Journal of Physical Chemistry B. 121, 36, p. 8437-8446 10 p.Research output: Contribution to journal › Article › peer-review
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2019
Mechanisms of Nanonewton Mechanostability in a Protein Complex Revealed by Molecular Dynamics Simulations and Single-Molecule Force Spectroscopy
Bernardi, R. C., Durner, E., Schoeler, C., Malinowska, K. H., Carvalho, B. G., Bayer, E. A., Luthey-Schulten, Z., Gaub, H. E. & Nash, M. A., Sep 18 2019, In: Journal of the American Chemical Society. 141, 37, p. 14752-14763 12 p.Research output: Contribution to journal › Article › peer-review
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Atoms to Phenotypes: Molecular Design Principles of Cellular Energy Metabolism
Singharoy, A., Maffeo, C., Delgado-Magnero, K. H., Swainsbury, D. J. K., Sener, M., Kleinekathöfer, U., Vant, J. W., Nguyen, J., Hitchcock, A., Isralewitz, B., Teo, I., Chandler, D. E., Stone, J. E., Phillips, J. C., Pogorelov, T. V., Mallus, M. I., Chipot, C., Luthey-Schulten, Z., Tieleman, D. P., Hunter, C. N. & 3 others, , Nov 14 2019, In: Cell. 179, 5, p. 1098-1111.e23Research output: Contribution to journal › Article › peer-review
Open Access -
2017
Challenges of Integrating Stochastic Dynamics and Cryo-Electron Tomograms in Whole-Cell Simulations
Earnest, T. M., Watanabe, R., Stone, J. E., Mahamid, J., Baumeister, W., Villa, E. & Luthey-Schulten, Z., Apr 20 2017, In: Journal of Physical Chemistry B. 121, 15, p. 3871-3881 11 p.Research output: Contribution to journal › Article › peer-review
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2019
In situ conformational changes of the escherichia coli serine chemoreceptor in different signaling states
Yang, W., Keith Cassidy, C., Ames, P., Diebolder, C. A., Schulten, K., Luthey-Schulten, Z., Parkinson, J. S. & Briegel, A., Jul 1 2019, In: mBio. 10, 4, e00973-19.Research output: Contribution to journal › Article › peer-review
Open Access -
2016
Improving reaction kernel performance in lattice microbes: Particle-wise propensities and run-time generated code
Hallock, M. J. & Luthey-Schulten, Z., Jul 18 2016, Proceedings - 2016 IEEE 30th International Parallel and Distributed Processing Symposium, IPDPS 2016. Institute of Electrical and Electronics Engineers Inc., p. 428-434 7 p. 7529899. (Proceedings - 2016 IEEE 30th International Parallel and Distributed Processing Symposium, IPDPS 2016).Research output: Chapter in Book/Report/Conference proceeding › Conference contribution
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2017
Combining in Vitro and in Silico Single-Molecule Force Spectroscopy to Characterize and Tune Cellulosomal Scaffoldin Mechanics
Verdorfer, T., Bernardi, R. C., Meinhold, A., Ott, W., Luthey-Schulten, Z., Nash, M. A. & Gaub, H. E., Dec 13 2017, In: Journal of the American Chemical Society. 139, 49, p. 17841-17852 12 p.Research output: Contribution to journal › Article › peer-review
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The Conformational Change in Elongation Factor Tu Involves Separation of Its Domains
Lai, J., Ghaemi, Z. & Luthey-Schulten, Z., Nov 14 2017, In: Biochemistry. 56, 45, p. 5972-5979 8 p.Research output: Contribution to journal › Article › peer-review
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2016
Estimation of Relative Protein-RNA Binding Strengths from Fluctuations in the Bound State
Ghaemi, Z., Guzman, I., Baek, J. U. J., Gruebele, M. & Luthey-Schulten, Z., Sep 13 2016, In: Journal of Chemical Theory and Computation. 12, 9, p. 4593-4599 7 p.Research output: Contribution to journal › Article › peer-review
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Ribosome biogenesis in replicating cells: Integration of experiment and theory
Earnest, T. M., Cole, J. A., Peterson, J. R., Hallock, M. J., Kuhlman, T. E. & Luthey-Schulten, Z., Oct 1 2016, In: Biopolymers. p. 735-751 17 p.Research output: Contribution to journal › Article › peer-review
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2017
Parametric studies of metabolic cooperativity in Escherichia coli colonies: Strain and geometric confinement effects
Peterson, J. R., Cole, J. A. & Luthey-Schulten, Z., Aug 2017, In: PloS one. 12, 8, e0182570.Research output: Contribution to journal › Article › peer-review
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2019
Essential metabolism for a minimal cell
Breuer, M., Earnest, T. M., Merryman, C., Wise, K. S., Sun, L., Lynott, M. R., Hutchison, C. A., Smith, H. O., Lapek, J. D., Gonzalez, D. J., Crécy-Lagard, V. D., Haas, D., Hanson, A. D., Labhsetwar, P., Glass, J. I. & Luthey-Schulten, Z., 2019, In: eLife. 8, p. 1-75 75 p., e36842.Research output: Contribution to journal › Article › peer-review
Open Access -
2017
Evolution of protein-coupled RNA dynamics during hierarchical assembly of ribosomal complexes
Abeysirigunawardena, S. C., Kim, H., Lai, J., Ragunathan, K., Rappé, M. C., Luthey-Schulten, Z., Ha, T. & Woodson, S. A., Dec 1 2017, In: Nature communications. 8, 1, 492.Research output: Contribution to journal › Article › peer-review
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2019
Kinetic Modeling of the Genetic Information Processes in a Minimal Cell
Thornburg, Z. R., Melo, M. C. R., Bianchi, D., Brier, T. A., Crotty, C., Breuer, M., Smith, H. O., Hutchison, C. A., Glass, J. I. & Luthey-Schulten, Z., Nov 28 2019, In: Frontiers in Molecular Biosciences. 6, 130.Research output: Contribution to journal › Article › peer-review
Open Access -
2016
Genome-wide gene expression and RNA half-life measurements allow predictions of regulation and metabolic behavior in Methanosarcina acetivorans
Peterson, J. R., Thor, S. S., Kohler, L., Kohler, P. R. A., Metcalf, W. W. & Luthey-Schulten, Z., Nov 16 2016, In: BMC genomics. 17, 1, 924.Research output: Contribution to journal › Article › peer-review
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2017
Genome-Scale Metabolic Modeling of Archaea Lends Insight into Diversity of Metabolic Function
Thor, S., Peterson, J. R. & Luthey-Schulten, Z., 2017, In: Archaea. 2017, 9763848.Research output: Contribution to journal › Review article › peer-review
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Population FBA predicts metabolic phenotypes in yeast
Labhsetwar, P., Melo, M. C. R., Cole, J. A. & Luthey-Schulten, Z., Sep 2017, In: PLoS computational biology. 13, 9, e1005728.Research output: Contribution to journal › Article › peer-review
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2019
Direction Matters: Monovalent Streptavidin/Biotin Complex under Load
Sedlak, S. M., Schendel, L. C., Melo, M. C. R., Pippig, D. A., Luthey-Schulten, Z., Gaub, H. E. & Bernardi, R. C., Jun 12 2019, In: Nano letters. 19, 6, p. 3415-3421 7 p.Research output: Contribution to journal › Article › peer-review
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Membrane organization of photosystem I complexes in the most abundant phototroph on Earth
MacGregor-Chatwin, C., Jackson, P. J., Sener, M., Chidgey, J. W., Hitchcock, A., Qian, P., Mayneord, G. E., Johnson, M. P., Luthey-Schulten, Z., Dickman, M. J., Scanlan, D. J. & Hunter, C. N., Aug 1 2019, In: Nature plants. 5, 8, p. 879-889 11 p.Research output: Contribution to journal › Article › peer-review
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2017
Careful accounting of extrinsic noise in protein expression reveals correlations among its sources
Cole, J. A. & Luthey-Schulten, Z., Jun 27 2017, In: Physical Review E. 95, 6, 062418.Research output: Contribution to journal › Article › peer-review