Publications by BOINC Projects

Our intent is to list papers containing scientific results arising, directly or indirectly, from BOINC-based computing. Please report any issues here. Thanks to Alex Piskun for maintaining this list.

Group by

project · year


  1. Allen, M., B. Booth, David Frame, J. Gregory, J. Kettleborough and Leonard Smith. Observational constraints on future climate: distinguishing robust from model-dependent statements of uncertainty in climate forecasting. (2022). (
  2. Li, Sihan, Sami Rifai, Liana O. Anderson and Sarah Sparrow. Identifying local‐scale meteorological conditions favorable to large fires in Brazil. Climate Resilience and Sustainability (2022). DOI: 10.1002/cli2.11. (
  3. Ming, J., M. A. Papa, H.-B. Eggenstein, B. Machenschalk, B. Steltner, R. Prix, B. Allen and O. Behnke. Results From an [email protected] Search for Continuous Gravitational Waves From G347.3 at Low Frequencies in LIGO O2 Data. The Astrophysical Journal (2022). DOI: 10.3847/1538-4357/ac35cb. ([email protected])
  4. Parent, E., H. Sewalls, P. C. C. Freire et al. Study of 72 Pulsars Discovered in the PALFA Survey: Timing Analysis, Glitch Activity, Emission Variability, and a Pulsar in an Eccentric Binary. The Astrophysical Journal (2022). DOI: 10.3847/1538-4357/ac375d. ([email protected])
  5. Mendelsohn, Eric J., Heidi Jo Newberg, Siddhartha Shelton, Lawrence M. Widrow, Jeffery M. Thompson and Carl J. Grillmair. Estimate of the Mass and Radial Profile of the Orphan–Chenab Stream's Dwarf-galaxy Progenitor Using [email protected]. The Astrophysical Journal (2022). DOI: 10.3847/1538-4357/ac498a. ([email protected])
  6. Courbet, A., J. Hansen, Y. Hsia et al. Computational design of mechanically coupled axle-rotor protein assemblies. Science (2022). DOI: 10.1126/science.abm1183. ([email protected])
  7. Nikitina, Natalia and Evgeny Ivashko. Optimization of the Workflow in a BOINC-Based Desktop Grid for Virtual Drug Screening. (2022). DOI: 10.1007/978-3-031-22941-1_50. ([email protected])
  8. Mottin, Melina, Bruna Katiele de Paula Sousa, Nathalya Cristina de Moraes Roso Mesquita et al. Discovery of New Zika Protease and Polymerase Inhibitors through the Open Science Collaboration Project OpenZika. Journal of Chemical Information and Modeling (2022). DOI: 10.1021/acs.jcim.2c00596. (World Community Grid (OpenZika))


  1. Li, Sihan, Sarah N Sparrow, Friederike E L Otto et al. Anthropogenic climate change contribution to wildfire-prone weather conditions in the Cerrado and Arc of deforestation. Environmental Research Letters (2021). DOI: 10.1088/1748-9326/ac1e3a. (
  2. Sparrow, Sarah, Andrew Bowery, Glenn D. Carver, Marcus O. Köhler, Pirkka Ollinaho, Florian Pappenberger, David Wallom and Antje Weisheimer. [email protected] version 1: a citizen science project for ensemble weather and climate forecasting. Geoscientific Model Development (2021). DOI: 10.5194/gmd-14-3473-2021. (
  3. Di Capua, G., S. Sparrow, K. Kornhuber, E. Rousi, S. Osprey, D. Wallom, B. van den Hurk and D. Coumou. Drivers behind the summer 2010 wave train leading to Russian heatwave and Pakistan flooding. npj Climate and Atmospheric Science (2021). DOI: 10.1038/s41612-021-00211-9. (
  4. Aengenheyster, Matthias, Sarah Sparrow, Peter Watson, David Wallom, Laure Zanna and Myles Allen. Impact of sub-seasonal atmosphere-ocean interactions on extreme event statistics. (2021). (
  5. Pham, Hoa X., Asaad Y. Shamseldin and Bruce W. Melville. Projection of future extreme precipitation: a robust assessment of downscaled daily precipitation. Natural Hazards (2021). DOI: 10.1007/s11069-021-04584-1. (
  6. Andrews, Timothy, Christopher J. Smith, Gunnar Myhre, Piers M. Forster, Robin Chadwick and Duncan Ackerley. Effective Radiative Forcing in a GCM With Fixed Surface Temperatures. Journal of Geophysical Research: Atmospheres (2021). DOI: 10.1029/2020JD033880. (
  7. Bevacqua, Emanuele, Theodore G. Shepherd, Peter A. G. Watson, Sarah Sparrow, David Wallom and Dann Mitchell. Larger Spatial Footprint of Wintertime Total Precipitation Extremes in a Warmer Climate. Geophysical Research Letters (2021). DOI: 10.1029/2020GL091990. (
  8. van Oldenborgh, Geert Jan, Folmer Krikken, Sophie Lewis et al. Attribution of the Australian bushfire risk to anthropogenic climate change. Natural Hazards and Earth System Sciences (2021). DOI: 10.5194/nhess-21-941-2021. (
  9. Barina, David. Convergence verification of the Collatz problem. The Journal of Supercomputing (2021). DOI: 10.1007/s11227-020-03368-x. (Collatz Conjecture)
  10. Steltner, B., M. A. Papa, H.-B. Eggenstein et al. [email protected] All-sky Search for Continuous Gravitational Waves in LIGO O2 Public Data. The Astrophysical Journal (2021). DOI: 10.3847/1538-4357/abc7c9. ([email protected])
  11. Bollati, Michela, Luisa Diomede, Toni Giorgino et al. A novel hotspot of gelsolin instability triggers an alternative mechanism of amyloid aggregation. Computational and Structural Biotechnology Journal (2021). DOI: 10.1016/j.csbj.2021.11.025. (
  12. Doerr, Stefan, Maciej Majewski, Adrià Pérez, Andreas Krämer, Cecilia Clementi, Frank Noe, Toni Giorgino and Gianni De Fabritiis. TorchMD: A Deep Learning Framework for Molecular Simulations. Journal of Chemical Theory and Computation (2021). DOI: 10.1021/acs.jctc.0c01343. (
  13. Vatutin, Eduard, Oleg Zaikin, Maxim Manzyuk and Natalia Nikitina. Searching for Orthogonal Latin Squares via Cells Mapping and BOINC-Based Cube-and-Conquer. Supercomputing (2021). ([email protected])
  14. Jueid, Adil. Studying QCD modeling of uncertainties in particle spectra from dark-matter annihilation into jets. Journal of Physics: Conference Series (2021). DOI: 10.1088/1742-6596/2156/1/012057. ([email protected] (Test4Theory))
  15. Jueid, Adil, Simone Amoroso, Sascha Caron, Peter Skands and Roberto Ruiz de austri. Particle spectra from dark matter annihilation: physics modelling and QCD uncertainties. Tools for High Energy Physics and Cosmology (2021). DOI: 10.22323/1.392.0028. ([email protected] (Test4Theory))
  16. Clemens, John. MLDS: A Dataset for Weight-Space Analysis of Neural Networks. (2021). DOI: 10.48550/ARXIV.2104.10555. ([email protected])
  17. Shelton, Siddhartha, Heidi Jo Newberg, Jake Weiss et al. An Algorithm for Reconstructing the Orphan Stream Progenitor with [email protected] Volunteer Computing. (2021). DOI: 10.48550/ARXIV.2102.07257. ([email protected])
  18. Donlon, T., H. Newberg, J. Weiss, A. Guffey and J. Thompson. A Trifurcated Sagittarius Stream in the South. (2021). ([email protected])
  19. Mendelsohn, E. J., H. J. Newberg, S. Shelton, L. Widrow, J. Thompson and C. Grillmair. Estimate of the Mass and Radial Profile of the Orphan Stream's Dwarf Galaxy Progenitor Using [email protected]. (2021). ([email protected])
  20. Leguy, Jules, Marta Glavatskikh, Thomas Cauchy and Benoit Da Mota. Scalable estimator of the diversity for de novo molecular generation resulting in a more robust QM dataset (OD9) and a more efficient molecular optimization. Journal of Cheminformatics (2021). DOI: 10.1186/s13321-021-00554-8. ([email protected])
  21. Vatutin, Eduard, Oleg Zaikin, Maxim Manzyuk and Natalia Nikitina. Searching for Orthogonal Latin Squares via Cells Mapping and BOINC-Based Cube-and-Conquer. (2021). DOI: 10.1007/978-3-030-92864-3_38. (Rakesearch)
  22. Hunt, Andrew C., James Brett Case, Young-Jun Park et al. Multivalent designed proteins protect against SARS-CoV-2 variants of concern. (2021). DOI: 10.1101/2021.07.07.451375. ([email protected])
  23. Quijano-Rubio, Alfredo, Hsien-Wei Yeh, Jooyoung Park et al. De novo design of modular and tunable protein biosensors. Nature (2021). DOI: 10.1038/s41586-021-03258-z. ([email protected])
  24. Hsia, Yang, Rubul Mout, William Sheffler et al. Design of multi-scale protein complexes by hierarchical building block fusion. Nature Communications (2021). DOI: 10.1038/s41467-021-22276-z. ([email protected])
  25. Norn, Christoffer, Basile I. M. Wicky, David Juergens et al. Protein sequence design by conformational landscape optimization. Proceedings of the National Academy of Sciences (2021). DOI: 10.1073/pnas.2017228118. ([email protected])
  26. Jukić, Marko, Sebastjan Kralj, Natalia Nikitina and Urban Bren. Bioinformatic and MD Analysis of N501Y SARS-CoV-2 (UK) Variant. (2021). DOI: 10.1007/978-3-030-86582-5_1. ([email protected])
  27. Nikitina, Natalia, Maxim Manzyuk, Črtomir Podlipnik and Marko Jukić. Volunteer Computing Project [email protected] for Virtual Drug Screening Against SARS-CoV-2. (2021). DOI: 10.1007/978-3-030-86582-5_3. ([email protected])
  28. Nikitina, Natalia, Maxim Manzyuk, Črtomir Podlipnik and Marko Jukić. Performance Estimation of a BOINC-Based Desktop Grid for Large-Scale Molecular Docking. (2021). DOI: 10.1007/978-3-030-86359-3_26. ([email protected])
  29. Nikitina, Natalia, Maxim Manzyuk, Marko Jukić, Črtomir Podlipnik, Ilya Kurochkin and Alexander Albertian. Toward Crowdsourced Drug Discovery: Start-Up of the Volunteer Computing Project [email protected]. (2021). DOI: 10.1007/978-3-030-92864-3_39. ([email protected])
  30. Pilati, Stefania, Giulia Malacarne, David Navarro-Payá et al. Vitis OneGenE: A Causality-Based Approach to Generate Gene Networks in Vitis vinifera Sheds Light on the Laccase and Dirigent Gene Families. Biomolecules (2021). DOI: 10.3390/biom11121744. (TN-Grid [email protected])
  31. Blanzieri, Enrico, Toma Tebaldi, Valter Cavecchia et al. A Computing System for Discovering Causal Relationships Among Human Genes to Improve Drug Repositioning. IEEE Transactions on Emerging Topics in Computing (2021). DOI: 10.1109/TETC.2020.3031024. (TN-Grid [email protected])
  32. Wiktorowicz, Grzegorz, Matthew Middleton, Norman Khan, Adam Ingram, Poshak Gandhi and Hugh Dickinson. Predicting the self-lensing population in optical surveys. Monthly Notices of the Royal Astronomical Society (2021). DOI: 10.1093/mnras/stab2135. ([email protected])
  33. Wiktorowicz, Grzegorz, Jean-Pierre Lasota, Krzysztof Belczynski, Youjun Lu, Jifeng Liu and Krystian Iłkiewicz. Wind-powered Ultraluminous X-ray Sources. The Astrophysical Journal (2021). DOI: 10.3847/1538-4357/ac0cf7. ([email protected])
  34. Goodsell, David S., Michel F. Sanner, Arthur J. Olson and Stefano Forli. The AutoDock suite at 30. Protein Science (2021). DOI: 10.1002/pro.3934. (World Community Grid ([email protected]))


  1. Durech, J., J. Tonry, N. Erasmus, L. Denneau, A. N. Heinze, H. Flewelling and R. Vanco. Asteroid models reconstructed from ATLAS photometry. (2020). DOI: 10.48550/ARXIV.2010.01820. ([email protected])
  2. Min, Seung-Ki, Yeon-Hee Kim, Sang-Min Lee, Sarah Sparrow, Sihan Li, Fraser C. Lott and Peter A. Stott. Quantifying Human Impact on the 2018 Summer Longest Heat Wave in South Korea. Bulletin of the American Meteorological Society (2020). DOI: 10.1175/BAMS-D-19-0151.1. (
  3. Rimi, Ruksana, Karsten Haustein, Emily Barbour, Sarah Sparrow, Sihan Li, David Wallom and Myles Allen. A Multi-model Assessment of the Changing Risks of Extreme Rainfall Events in Bangladesh under 1.5 and 2.0 degrees’ warmer worlds. (2020). (
  4. Watson, Peter, Sarah Sparrow, William Ingram et al. Multi-thousand member ensemble atmospheric simulations with global 60km resolution using (2020). (
  5. Bussi, Gianbattista and Paul G. Whitehead. Impacts of droughts on low flows and water quality near power stations. Hydrological Sciences Journal (2020). DOI: 10.1080/02626667.2020.1724295. (
  6. Naveau, Philippe, Alexis Hannart and Aurélien Ribes. Statistical Methods for Extreme Event Attribution in Climate Science. Annual Review of Statistics and Its Application (2020). DOI: 10.1146/annurev-statistics-031219-041314. (
  7. Leach, Nicholas J., Sihan Li, Sarah Sparrow, Geert Jan van Oldenborgh, Fraser C. Lott, Antje Weisheimer and Myles R. Allen. Anthropogenic Influence on the 2018 Summer Warm Spell in Europe: The Impact of Different Spatio-Temporal Scales. Bulletin of the American Meteorological Society (2020). DOI: 10.1175/BAMS-D-19-0201.1. (
  8. Iyyanki, Murali Krishna V. and Prisilla Jayanthi. The Impact of Climate Change on Human Eyes. Urban Health Risk and Resilience in Asian Cities (2020). (
  9. Di Capua, Giorgia, Kai Kornhuber, Eftychia Rousi, Sarah Sparrow, David Wallom and Dim Coumou. Wave-resonance fingerprint in the 2010 summer: a modelling experiment. (2020). (
  10. Montes, Diego, Juan A. Añel, David C. H. Wallom, Peter Uhe, Pablo V. Caderno and Tomás F. Pena. Cloud Computing for Climate Modelling: Evaluation, Challenges and Benefits. Computers (2020). DOI: 10.3390/computers9020052. (
  11. Li, Sihan, Friederike E L Otto, Luke J Harrington, Sarah N Sparrow and David C H Wallom. A pan-South-America assessment of avoided exposure to dangerous extreme precipitation by limiting to 1.5 °C warming. Environmental Research Letters (2020). DOI: 10.1088/1748-9326/ab50a2. (
  12. Undorf, S., K. Allen, J. Hagg, S. Li, F. C. Lott, M. J. Metzger, S. N. Sparrow and S. F. B. Tett. Learning from the 2018 heatwave in the context of climate change: are high-temperature extremes important for adaptation in Scotland?. Environmental Research Letters (2020). DOI: 10.1088/1748-9326/ab6999. (
  13. Tozer, Carly R., James S. Risbey, Michael Grose et al. A 1-Day Extreme Rainfall Event in Tasmania: Process Evaluation and Long Tail Attribution. Bulletin of the American Meteorological Society (2020). DOI: 10.1175/BAMS-D-19-0219.1. (
  14. Fučkar, Neven Stjepan, Friederike E.L. Otto, Flavio Lehner, Izidine Pinto, Sarah Sparrow, Sihan Li and David Wallom. On High Precipitation in Mozambique, Zimbabwe and Zambia in February 2018. Bulletin of the American Meteorological Society (2020). DOI: 10.1175/BAMS-D-19-0162.1. (
  15. Leclercq, F., B. Faure, G. Lavaux, B. D. Wandelt, A. H. Jaffe, A. F. Heavens and W. J. Percival. Perfectly parallel cosmological simulations using spatial comoving Lagrangian acceleration. Astronomy & Astrophysics (2020). DOI: 10.1051/0004-6361/202037995. ([email protected])
  16. Nieder, L., C. J. Clark, D. Kandel et al. Discovery of a Gamma-Ray Black Widow Pulsar by GPU-accelerated [email protected]. The Astrophysical Journal Letters (2020). DOI: 10.3847/2041-8213/abbc02. ([email protected])
  17. Papa, M. A., J. Ming, E. V. Gotthelf et al. Search for Continuous Gravitational Waves from the Central Compact Objects in Supernova Remnants Cassiopeia A, Vela Jr., and G347.3–0.5. The Astrophysical Journal (2020). DOI: 10.3847/1538-4357/ab92a6. ([email protected])
  18. Nieder, L., B. Allen, C. J. Clark and H. J. Pletsch. Exploiting Orbital Constraints from Optical Data to Detect Binary Gamma-Ray Pulsars. The Astrophysical Journal (2020). DOI: 10.3847/1538-4357/abaf53. ([email protected])
  19. Clark, C. J., L. Nieder, G. Voisin et al. [email protected] Discovery of the Gamma-ray Millisecond Pulsar PSR J2039-5617 Confirms Its Predicted Redback Nature. (2020). DOI: 10.48550/ARXIV.2007.14849. ([email protected])
  20. Herrera-Nieto, Pablo, Adrià Pérez and Gianni De Fabritiis. Characterization of partially ordered states in the intrinsically disordered N-terminal domain of p53 using millisecond molecular dynamics simulations. Scientific Reports (2020). DOI: 10.1038/s41598-020-69322-2. (
  21. Cossu, Federica, Luca Sorrentino, Elisa Fagnani, Mattia Zaffaroni, Mario Milani, Toni Giorgino and Eloise Mastrangelo. Computational and Experimental Characterization of NF023, A Candidate Anticancer Compound Inhibiting cIAP2/TRAF2 Assembly. Journal of Chemical Information and Modeling (2020). DOI: 10.1021/acs.jcim.0c00518. (
  22. Herrera-Nieto, Pablo, Adrià Pérez and Gianni De Fabritiis. Small Molecule Modulation of Intrinsically Disordered Proteins Using Molecular Dynamics Simulations. Journal of Chemical Information and Modeling (2020). DOI: 10.1021/acs.jcim.0c00381. (
  23. Rodríguez-Espigares, Ismael, Mariona Torrens-Fontanals, Johanna K. S. Tiemann et al. GPCRmd uncovers the dynamics of the 3D-GPCRome. Nature Methods (2020). DOI: 10.1038/s41592-020-0884-y. (
  24. Martinez-Rosell, Gerard, Silvia Lovera, Zara A. Sands and Gianni De Fabritiis. PlayMolecule CrypticScout: Predicting Protein Cryptic Sites Using Mixed-Solvent Molecular Simulations. Journal of Chemical Information and Modeling (2020). DOI: 10.1021/acs.jcim.9b01209. (
  25. Vatutin, Eduard and Alexey Belyshev. Enumerating the Orthogonal Diagonal Latin Squares of Small Order for Different Types of Orthogonality. Supercomputing (2020). ([email protected])
  26. Vatutin, Eduard, Alexey Belyshev, Natalia Nikitina and Maxim Manzuk. Evaluation of Efficiency of Using Simple Transformations When Searching for Orthogonal Diagonal Latin Squares of Order 10. High-Performance Computing Systems and Technologies in Scientific Research, Automation of Control and Production (2020). ([email protected])
  27. iThena Project: Distributed measurements and analysis of the global Internet – BOINC (Berkeley Open Infrastructure for Network Computing) and Big Data environment​. (2020). (IThena)
  28. Pérez-Calero Yzquierdo, Antonio, Maria Acosta Flechas, Diego Davila Foyo et al. Evolution of the CMS Global Submission Infrastructure for the HL-LHC Era. EPJ Web of Conferences (2020). DOI: 10.1051/epjconf/202024503016. ([email protected] ([email protected]))
  29. Hunt-Smith, Nicholas and Peter Skands. String fragmentation with a time-dependent tension. The European Physical Journal C (2020). DOI: 10.1140/epjc/s10052-020-08654-9. ([email protected] (Test4Theory))
  30. Bierlich, Christian, Andy Buckley, Christian Holm Christensen et al. Confronting experimental data with heavy-ion models: Rivet for heavy ions. The European Physical Journal C (2020). DOI: 10.1140/epjc/s10052-020-8033-4. ([email protected] (Test4Theory))
  31. Duncan, Cody B and Peter Skands. Fragmentation of two repelling Lund strings. SciPost Physics (2020). DOI: 10.21468/SciPostPhys.8.5.080. ([email protected] (Test4Theory))
  32. d'Enterria, David and Cynthia Yan. Revised QCD effects on the Z $\to b\bar{b}$ forward-backward asymmetry. (2020). ([email protected] (Test4Theory))
  33. Donlon, Thomas, Heidi Jo Newberg, Robyn Sanderson and Lawrence M. Widrow. The Milky Way’s Shell Structure Reveals the Time of a Radial Collision. The Astrophysical Journal (2020). DOI: 10.3847/1538-4357/abb5f6. ([email protected])
  34. Mendelsohn, E. J., H. J. Newberg, T. Donlon and J. M. Thompson. N-Body Simulations with [email protected]. (2020). ([email protected])
  35. Leguy, Jules, Thomas Cauchy, Marta Glavatskikh, Béatrice Duval and Benoit Da Mota. EvoMol: a flexible and interpretable evolutionary algorithm for unbiased de novo molecular generation. Journal of Cheminformatics (2020). DOI: 10.1186/s13321-020-00458-z. ([email protected])
  36. Chen, Kate Huihsuan, Wen-Tzong Liang, Chun-Hung Lin and Leon Yufeng Wu. Citizen Seismology in Taiwan: Development, Outreach, and Formative Assessment of Near-Real Time Earthquake Game Competition Activities. Frontiers in Earth Science (2020). DOI: 10.3389/feart.2020.00154. (Quake-Catcher Network)
  37. Vatutin, Eduard and Alexey Belyshev. Enumerating the Orthogonal Diagonal Latin Squares of Small Order for Different Types of Orthogonality. (2020). DOI: 10.1007/978-3-030-64616-5_50. (Rakesearch)
  38. Ivashko, Evgeny and Natalia Nikitina. Replication of “Tail” Computations in a Desktop Grid Project. (2020). DOI: 10.1007/978-3-030-64616-5_52. (Rakesearch)
  39. Cao, Longxing, Inna Goreshnik, Brian Coventry et al. De novo design of picomolar SARS-CoV-2 miniprotein inhibitors. Science (2020). DOI: 10.1126/science.abd9909. ([email protected])
  40. Leman, Julia Koehler, Brian D. Weitzner, P. Douglas Renfrew et al. Better together: Elements of successful scientific software development in a distributed collaborative community. PLOS Computational Biology (2020). DOI: 10.1371/journal.pcbi.1007507. ([email protected])
  41. Wei, Kathy Y., Danai Moschidi, Matthew J. Bick et al. Computational design of closely related proteins that adopt two well-defined but structurally divergent folds. Proceedings of the National Academy of Sciences (2020). DOI: 10.1073/pnas.1914808117. ([email protected])
  42. Mulligan, Vikram Khipple, Christine S. Kang, Michael R. Sawaya et al. Computational design of mixed chirality peptide macrocycles with internal symmetry. Protein Science (2020). DOI: 10.1002/pro.3974. ([email protected])
  43. Yang, Jianyi, Ivan Anishchenko, Hahnbeom Park, Zhenling Peng, Sergey Ovchinnikov and David Baker. Improved protein structure prediction using predicted interresidue orientations. Proceedings of the National Academy of Sciences (2020). DOI: 10.1073/pnas.1914677117. ([email protected])
  44. Brunette, Tj, Matthew J. Bick, Jesse M. Hansen, Cameron M. Chow, Justin M. Kollman and David Baker. Modular repeat protein sculpting using rigid helical junctions. Proceedings of the National Academy of Sciences (2020). DOI: 10.1073/pnas.1908768117. ([email protected])
  45. Zhang, Zhi-Song, Dan Werthimer, Tong-Jie Zhang et al. First SETI Observations with China’s Five-hundred-meter Aperture Spherical Radio Telescope (FAST). The Astrophysical Journal (2020). DOI: 10.3847/1538-4357/ab7376. ([email protected])
  46. Wiktorowicz, Grzegorz, Youjun Lu, Łukasz Wyrzykowski, Haotong Zhang, Jifeng Liu, Stephen Justham and Krzysztof Belczynski. Noninteracting Black Hole Binaries with Gaia and LAMOST. The Astrophysical Journal (2020). DOI: 10.3847/1538-4357/abc699. ([email protected])
  47. Ramanauskas, Mikalojus, Dmitrij Šešok, Julius Žilinskas, Vadimas Starikovičius, Arnas Kačeniauskas and Rimantas Belevičius. Global optimization of grillage-type foundations using a distributed genetic algorithm. Journal of Global Optimization (2020). DOI: 10.1007/s10898-019-00838-2. ([email protected])


  1. Durech, Josef, Josef Hanus and Radim Vanco. Inversion of asteroid photometry from Gaia DR2 and the Lowell Observatory photometric database. (2019). DOI: 10.48550/ARXIV.1909.09395. ([email protected])
  2. Redondo, Carlos and Ritu Arora. Greyfish: An Out-of-the-Box, Reusable, Portable Cloud Storage Service. PEARC '19: Practice and Experience in Advanced Research Computing (2019). DOI: 10.1145/3332186.3333055. ([email protected])
  3. Arora, Ritu, Carlos Redondo and Gerald Joshua. Scalable Software Infrastructure for Integrating Supercomputing with Volunteer Computing and Cloud Computing. Software Challenges to Exascale Computing (2019). ([email protected])
  4. Gaupp, Franziska, Jim Hall, Dann Mitchell and Simon Dadson. Increasing risks of multiple breadbasket failure under 1.5 and 2 °C global warming. Agricultural Systems (2019). DOI: 10.1016/j.agsy.2019.05.010. (
  5. Marthews, T. R., R. G. Jones, S. J. Dadson, F. E. L. Otto, D. Mitchell, B. P. Guillod and M. R. Allen. The Impact of Human‐Induced Climate Change on Regional Drought in the Horn of Africa. Journal of Geophysical Research: Atmospheres (2019). DOI: 10.1029/2018JD030085. (
  6. Baker, Hugh S., Tim Woollings, Cheikh Mbengue, Myles R. Allen, Christopher H. O’Reilly, Hideo Shiogama and Sarah Sparrow. Forced summer stationary waves: the opposing effects of direct radiative forcing and sea surface warming. Climate Dynamics (2019). DOI: 10.1007/s00382-019-04786-1. (
  7. Philip, Sjoukje, Sarah Sparrow, Sarah F. Kew et al. Attributing the 2017 Bangladesh floods from meteorological and hydrological perspectives. Hydrology and Earth System Sciences (2019). DOI: 10.5194/hess-23-1409-2019. (
  8. Lo, Y. T. Eunice, Daniel M. Mitchell, Antonio Gasparrini et al. Increasing mitigation ambition to meet the Paris Agreement’s temperature goal avoids substantial heat-related mortality in U.S. cities. Science Advances (2019). DOI: 10.1126/sciadv.aau4373. (
  9. Wehner, Michael F., Colin Zarzycki and Christina Patricola. Estimating the Human Influence on Tropical Cyclone Intensity as the Climate Changes. Hurricane Risk (2019). (
  10. Hawkins, Linnia R., David E. Rupp, Doug J. McNeall, Sihan Li, Richard A. Betts, Philip W. Mote, Sarah N. Sparrow and David C. H. Wallom. Parametric Sensitivity of Vegetation Dynamics in the TRIFFID Model and the Associated Uncertainty in Projected Climate Change Impacts on Western U.S. Forests. Journal of Advances in Modeling Earth Systems (2019). DOI: 10.1029/2018MS001577. (
  11. Baker, Hugh S., Tim Woollings, Chris E. Forest and Myles R. Allen. The Linear Sensitivity of the North Atlantic Oscillation and Eddy-Driven Jet to SSTs. Journal of Climate (2019). DOI: 10.1175/JCLI-D-19-0038.1. (
  12. Li, Sihan, David E. Rupp, Linnia Hawkins et al. Reducing climate model biases by exploring parameter space with large ensembles of climate model simulations and statistical emulation. Geoscientific Model Development (2019). DOI: 10.5194/gmd-12-3017-2019. (
  13. Min, Seung-Ki, Yeon-Hee Kim, In-Hong Park, Donghyun Lee, Sarah Sparrow, David Wallom and Dáithí Stone. Anthropogenic Contribution to the 2017 Earliest Summer Onset in South Korea. Bulletin of the American Meteorological Society (2019). DOI: 10.1175/BAMS-D-18-0096.1. (
  14. Lawal, Kamoru A. and Dáithí A. Stone. On the Co-Variability between Climate Indices and the Potential Spread of Seasonal Climate Simulations over South African Provinces. Atmospheric and Climate Sciences (2019). DOI: 10.4236/acs.2019.93027. (
  15. Rimi, Ruksana H., Karsten Haustein, Emily J. Barbour, Richard G. Jones, Sarah N. Sparrow and Myles R. Allen. Evaluation of a large ensemble regional climate modelling system for extreme weather events analysis over Bangladesh. International Journal of Climatology (2019). DOI: 10.1002/joc.5931. (
  16. Chen, Yang, Wei Chen, Qin Su et al. Anthropogenic Warming has Substantially Increased the Likelihood of July 2017–Like Heat Waves over Central Eastern China. Bulletin of the American Meteorological Society (2019). DOI: 10.1175/BAMS-D-18-0087.1. (
  17. de Abreu, Rafael C., Christopher Cunningham, Conrado M. Rudorff et al. Contribution of Anthropogenic Climate Change to April–May 2017 Heavy Precipitation over the Uruguay River Basin. Bulletin of the American Meteorological Society (2019). DOI: 10.1175/BAMS-D-18-0102.1. (
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  31. Keeble, Anthony H., Lukasz A. Joachimiak, María Jesus Maté, Nicola Meenan, Nadine Kirkpatrick, David Baker and Colin Kleanthous. Experimental and Computational Analyses of the Energetic Basis for Dual Recognition of Immunity Proteins by Colicin Endonucleases. Journal of Molecular Biology (2008). DOI: 10.1016/j.jmb.2008.03.055. ([email protected])
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  33. Das, Rhiju and David Baker. Macromolecular Modeling with Rosetta. Annual Review of Biochemistry (2008). DOI: 10.1146/annurev.biochem.77.062906.171838. ([email protected])
  34. Sheffler, Will and David Baker. RosettaHoles: Rapid assessment of protein core packing for structure prediction, refinement, design and validation. Protein Science (2008). DOI: 10.1002/pro.8. ([email protected])
  35. Fan, Erkang, David Baker, Stanley Fields et al. Structural Genomics of Pathogenic Protozoa: an Overview. Structural Proteomics (2008). ([email protected])
  36. Burcsi, Péter and Attila Kovács. Exhaustive search methods for CNS polynomials. Monatshefte für Mathematik (2008). DOI: 10.1007/s00605-008-0005-y. (SZTAKI Desktop Grid)
  37. Schröder, Christian, Ruslan Prozorov, Paul Kögerler et al. Multiple nearest-neighbor exchange model for the frustrated magnetic molecules Mo72Fe30 and Mo72Cr30. (2008). DOI: 10.48550/ARXIV.0801.2065. ([email protected])
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  40. Snell, Edward H., Angela M. Lauricella, Stephen A. Potter et al. Establishing a training set through the visual analysis of crystallization trials. Part II: crystal examples. Acta Crystallographica Section D: Biological Crystallography (2008). DOI: 10.1107/S0907444908028059. (World Community Grid (Help Conquer Cancer))
  41. Snell, Edward H., Joseph R. Luft, Stephen A. Potter et al. Establishing a training set through the visual analysis of crystallization trials. Part I: ∼150 000 images. Acta Crystallographica Section D: Biological Crystallography (2008). DOI: 10.1107/S0907444908028047. (World Community Grid (Help Conquer Cancer))
  42. Sacquin-Mora, Sophie, Alessandra Carbone and Richard Lavery. Identification of Protein Interaction Partners and Protein–Protein Interaction Sites. Journal of Molecular Biology (2008). DOI: 10.1016/j.jmb.2008.08.002. (World Community Grid (Help Cure Muscular Dystrophy))
  43. DiPaola, Robert S., Dmitri Dvorzhinski, Anu Thalasila et al. Therapeutic starvation and autophagy in prostate cancer: A new paradigm for targeting metabolism in cancer therapy. The Prostate (2008). DOI: 10.1002/pros.20837. (World Community Grid (Help Defeat Cancer))
  44. Boxem, Mike, Zoltan Maliga, Niels Klitgord et al. A Protein Domain-Based Interactome Network for C. elegans Early Embryogenesis. Cell (2008). DOI: 10.1016/j.cell.2008.07.009. (World Community Grid (Human Proteome Folding))
  45. Loewe, Laurence and Asher D Cutter. On the potential for extinction by Muller's Ratchet in Caenorhabditis elegans. BMC Evolutionary Biology (2008). DOI: 10.1186/1471-2148-8-125. ([email protected] ([email protected]))
  46. Loewe, Laurence and Dunja K Lamatsch. Quantifying the threat of extinction from Muller's ratchet in the diploid Amazon molly (Poecilia formosa). BMC Evolutionary Biology (2008). DOI: 10.1186/1471-2148-8-88. ([email protected] ([email protected]))


  1. Frame, D.J, N.E Faull, M.M Joshi and M.R Allen. Probabilistic climate forecasts and inductive problems. Philosophical Transactions of the Royal Society A: Mathematical, Physical and Engineering Sciences (2007). DOI: 10.1098/rsta.2007.2069. (
  2. Pall, P., M. R. Allen and D. A. Stone. Testing the Clausius–Clapeyron constraint on changes in extreme precipitation under CO2 warming. Climate Dynamics (2007). DOI: 10.1007/s00382-006-0180-2. (
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  6. Piani, C., B. Sanderson, F. Giorgi, D. J. Frame, C. Christensen and M. R. Allen. Regional probabilistic climate forecasts from a multithousand, multimodel ensemble of simulations. Journal of Geophysical Research: Atmospheres (2007). DOI: 10.1029/2007JD008712. (
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  13. Taufer, M., A. Kerstens, T. P. Estrada, D. A. Flores, R. Zamudio, P. J. Teller, R. Armen and C. L. Brooks. Moving Volunteer Computing towards Knowledge-Constructed, Dynamically-Adaptive Modeling and Scheduling. 2007 IEEE International Parallel and Distributed Processing Symposium (2007). DOI: 10.1109/IPDPS.2007.370668. ([email protected])
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  19. Desell, Travis, Nathan Cole, Malik Magdon-Ismail, Heidi Newberg, Boleslaw Szymanski and Carlos Varela. Distributed and Generic Maximum Likelihood Evaluation. Third IEEE International Conference on e-Science and Grid Computing (e-Science 2007) (2007). DOI: 10.1109/E-SCIENCE.2007.30. ([email protected])
  20. Gluck, Kevin, Matthias Scheutz, Glenn Gunzelmann, Jack Harris and Jeff Kershner. Combinatorics meets processing power: Large-scale computational resources for BRIMS. 16th Conference on Behavior Representation in Modeling and Simulation 2007, BRIMS (2007). ([email protected])
  21. Grimme, Stefan, Marc Steinmetz and Martin Korth. How to Compute Isomerization Energies of Organic Molecules with Quantum Chemical Methods. The Journal of Organic Chemistry (2007). DOI: 10.1021/jo062446p. ([email protected])
  22. Qian, Bin, Srivatsan Raman, Rhiju Das, Philip Bradley, Airlie J. McCoy, Randy J. Read and David Baker. High-resolution structure prediction and the crystallographic phase problem. Nature (2007). DOI: 10.1038/nature06249. ([email protected])
  23. Wang, Chu, Philip Bradley and David Baker. Protein–Protein Docking with Backbone Flexibility. Journal of Molecular Biology (2007). DOI: 10.1016/j.jmb.2007.07.050. ([email protected])
  24. Das, Rhiju, Bin Qian, Srivatsan Raman et al. Structure prediction for CASP7 targets using extensive all-atom refinement with [email protected]. Proteins (2007). DOI: 10.1002/prot.21636. ([email protected])
  25. Das, Rhiju and David Baker. Automated de novo prediction of native-like RNA tertiary structures. Proceedings of the National Academy of Sciences (2007). DOI: 10.1073/pnas.0703836104. ([email protected])
  26. Wollacott, Andrew M., Alexandre Zanghellini, Paul Murphy and David Baker. Prediction of structures of multidomain proteins from structures of the individual domains. Protein Science: A Publication of the Protein Society (2007). DOI: 10.1110/ps.062270707. ([email protected])
  27. Malmström, Lars, Michael Riffle, Charlie E. M. Strauss, Dylan Chivian, Trisha N. Davis, Richard Bonneau and David Baker. Superfamily assignments for the yeast proteome through integration of structure prediction with the gene ontology. PLoS biology (2007). DOI: 10.1371/journal.pbio.0050076. ([email protected])
  28. Kopp, Jürgen, Lorenza Bordoli, James N.D. Battey, Florian Kiefer and Torsten Schwede. Assessment of CASP7 predictions for template-based modeling targets. Proteins: Structure, Function, and Bioinformatics (2007). DOI: 10.1002/prot.21753. ([email protected])
  29. Jauch, Ralf, Hock Chuan Yeo, Prasanna R. Kolatkar and Neil D. Clarke. Assessment of CASP7 structure predictions for template free targets. Proteins: Structure, Function, and Bioinformatics (2007). DOI: 10.1002/prot.21771. ([email protected])
  30. Windbichler, Nikolai, Philippos Aris Papathanos, Flaminia Catteruccia, Hilary Ranson, Austin Burt and Andrea Crisanti. Homing endonuclease mediated gene targeting in Anopheles gambiae cells and embryos. Nucleic Acids Research (2007). DOI: 10.1093/nar/gkm632. ([email protected])
  31. Tress, Michael, Jianlin Cheng, Pierre Baldi et al. Assessment of predictions submitted for the CASP7 domain prediction category. Proteins: Structure, Function, and Bioinformatics (2007). DOI: 10.1002/prot.21675. ([email protected])
  32. Wojtowicz, Woj M., Wei Wu, Ingemar Andre, Bin Qian, David Baker and S. Lawrence Zipursky. A Vast Repertoire of Dscam Binding Specificities Arises from Modular Interactions of Variable Ig Domains. Cell (2007). DOI: 10.1016/j.cell.2007.08.026. ([email protected])
  33. Knight, James D. R., Bin Qian, David Baker and Rashmi Kothary. Conservation, Variability and the Modeling of Active Protein Kinases. PLOS ONE (2007). DOI: 10.1371/journal.pone.0000982. ([email protected])
  34. Tsemekhman, Kiril, Lukasz Goldschmidt, David Eisenberg and David Baker. Cooperative hydrogen bonding in amyloid formation. Protein Science (2007). DOI: 10.1110/ps.062609607. ([email protected])
  35. Shcherbata, Halyna R, Andriy S Yatsenko, Larissa Patterson, Vanita D Sood, Uri Nudel, David Yaffe, David Baker and Hannele Ruohola-Baker. Dissecting muscle and neuronal disorders in a Drosophila model of muscular dystrophy. The EMBO Journal (2007). DOI: 10.1038/sj.emboj.7601503. ([email protected])
  36. Dantas, Gautam, Colin Corrent, Steve L. Reichow et al. High-resolution Structural and Thermodynamic Analysis of Extreme Stabilization of Human Procarboxypeptidase by Computational Protein Design. Journal of Molecular Biology (2007). DOI: 10.1016/j.jmb.2006.11.080. ([email protected])
  37. Wang, Chu, Ora Schueler-Furman, Ingemar Andre, Nir London, Sarel J. Fleishman, Philip Bradley, Bin Qian and David Baker. RosettaDock in CAPRI rounds 6-12. Proteins: Structure, Function, and Bioinformatics (2007). DOI: 10.1002/prot.21684. ([email protected])
  38. Lengyel, Candice S.E., Lindsey J. Willis, Patrick Mann, David Baker, Tanja Kortemme, Roland K. Strong and Benjamin J. McFarland. Mutations Designed to Destabilize the Receptor-Bound Conformation Increase MICA-NKG2D Association Rate and Affinity. Journal of Biological Chemistry (2007). DOI: 10.1074/jbc.M704513200. ([email protected])
  39. André, Ingemar, Philip Bradley, Chu Wang and David Baker. Prediction of the structure of symmetrical protein assemblies. Proceedings of the National Academy of Sciences (2007). DOI: 10.1073/pnas.0702626104. ([email protected])
  40. Qiu, Jian, Will Sheffler, David Baker and William Stafford Noble. Ranking predicted protein structures with support vector regression. Proteins: Structure, Function, and Bioinformatics (2007). DOI: 10.1002/prot.21809. ([email protected])
  41. Stankunas, Kryn, J. Henri Bayle, James J. Havranek, Thomas J. Wandless, David Baker, Gerald R. Crabtree and Jason E. Gestwicki. Rescue of Degradation-Prone Mutants of the FK506-Rapamycin Binding (FRB) Protein with Chemical Ligands. ChemBioChem (2007). DOI: 10.1002/cbic.200700087. ([email protected])
  42. Watters, Alexander L., Pritilekha Deka, Colin Corrent, David Callender, Gabriele Varani, Tobin Sosnick and David Baker. The Highly Cooperative Folding of Small Naturally Occurring Proteins Is Likely the Result of Natural Selection. Cell (2007). DOI: 10.1016/j.cell.2006.12.042. ([email protected])
  43. Goobes, Gil, Rivka Goobes, Wendy J. Shaw et al. The structure, dynamics, and energetics of protein adsorption—lessons learned from adsorption of statherin to hydroxyapatite. Magnetic Resonance in Chemistry (2007). DOI: 10.1002/mrc.2123. ([email protected])
  44. Barth, P., J. Schonbrun and D. Baker. Toward high-resolution prediction and design of transmembrane helical protein structures. Proceedings of the National Academy of Sciences (2007). DOI: 10.1073/pnas.0702515104. ([email protected])
  45. Rattei, T., P. Tischler, R. Arnold et al. SIMAP structuring the network of protein similarities. Nucleic Acids Research (2007). DOI: 10.1093/nar/gkm963. (SIMAP)
  46. Silberstein, Mark, Dan Geiger and Assaf Schuster. A Distributed System for Genetic Linkage Analysis. Distributed, High-Performance and Grid Computing in Computational Biology (2007). ([email protected])
  47. Ando, Tadashi and Ichiro Yamato. Brownian Dynamics Approach to Protein Folding. Frontiers of Computational Science (2007). (TANPAKU)
  48. Bazinet, Adam L., Daniel S. Myers, John Fuetsch and Michael P. Cummings. Grid Services Base Library: A high-level, procedural application programming interface for writing Globus-based Grid services. Future Generation Computer Systems (2007). DOI: 10.1016/j.future.2006.07.009. (The Lattice Project)
  49. Tishkoff, S. A., M. K. Gonder, B. M. Henn et al. History of Click-Speaking Populations of Africa Inferred from mtDNA and Y Chromosome Genetic Variation. Molecular Biology and Evolution (2007). DOI: 10.1093/molbev/msm155. (The Lattice Project)
  50. Myers, Daniel S., Adam L. Bazinet and Michael P. Cummings. Expanding the Reach of Grid Computing: Combining Globus- and BOINC-Based Systems. Grid Computing for Bioinformatics and Computational Biology (2007). (The Lattice Project)
  51. Lee, Sung, Taowei David Wang, Nada Hashmi and Michael P. Cummings. Bio-STEER: A Semantic Web workflow tool for Grid computing in the life sciences. Future Generation Computer Systems (2007). DOI: 10.1016/j.future.2006.07.011. (The Lattice Project)
  52. Chang, Max W., William Lindstrom, Arthur J. Olson and Richard K. Belew. Analysis of HIV Wild-Type and Mutant Structures via in Silico Docking against Diverse Ligand Libraries. Journal of Chemical Information and Modeling (2007). DOI: 10.1021/ci700044s. (World Community Grid ([email protected]))
  53. Bonneau, Richard, Marc T. Facciotti, David J. Reiss et al. A Predictive Model for Transcriptional Control of Physiology in a Free Living Cell. Cell (2007). DOI: 10.1016/j.cell.2007.10.053. (World Community Grid (Human Proteome Folding))
  54. Malmström, Lars, Michael Riffle, Charlie E. M. Strauss, Dylan Chivian, Trisha N. Davis, Richard Bonneau and David Baker. Superfamily assignments for the yeast proteome through integration of structure prediction with the gene ontology. PLoS biology (2007). DOI: 10.1371/journal.pbio.0050076. (World Community Grid (Human Proteome Folding))
  55. Andersen-Nissen, Erica, Kelly D. Smith, Richard Bonneau, Roland K. Strong and Alan Aderem. A conserved surface on Toll-like receptor 5 recognizes bacterial flagellin. Journal of Experimental Medicine (2007). DOI: 10.1084/jem.20061400. (World Community Grid (Human Proteome Folding))
  56. Avila-Campillo, Iliana, Kevin Drew, John Lin, David J. Reiss and Richard Bonneau. BioNetBuilder: automatic integration of biological networks. Bioinformatics (2007). DOI: 10.1093/bioinformatics/btl604. (World Community Grid (Human Proteome Folding))
  57. Loewe, Laurence. [email protected]: observations on participant choice, work unit variation and low-effort global computing. Software: Practice and Experience (2007). DOI: 10.1002/spe.806. ([email protected] ([email protected]))


  1. Hegerl, Gabriele C., Thomas J. Crowley, William T. Hyde and David J. Frame. Climate sensitivity constrained by temperature reconstructions over the past seven centuries. Nature (2006). DOI: 10.1038/nature04679. (
  2. Allen, Myles, David Frame, Jamie Kettleborough and David Stainforth. Model error in weather and climate forecasting. Predictability of Weather and Climate (2006). (
  3. Knutti, Reto, Gerald A. Meehl, Myles R. Allen and David A. Stainforth. Constraining Climate Sensitivity from the Seasonal Cycle in Surface Temperature. Journal of Climate (2006). DOI: 10.1175/JCLI3865.1. (
  4. Schellnhuber, Hans Joachim, Wolfgang Cramer, Wolfgang P. Cramer, Nebojsa Nakicenovic, Gary Yohe and Tom Wigley. Avoiding Dangerous Climate Change. (2006). (
  5. Estrada, Trilce, David A. Flores, Michela Taufer, Patricia J. Teller, Andre Kerstens and David P. Anderson. The Effectiveness of Threshold-Based Scheduling Policies in BOINC Projects. 2006 Second IEEE International Conference on e-Science and Grid Computing (2006). DOI: 10.1109/E-SCIENCE.2006.261172. ([email protected])
  6. Stevens, Marc, Arjen Lenstra and Benne de Weger. Target Collisions for MD5 and Colliding X.509 Certificates for Different Identities. (2006). (HashClash)
  7. Taufer, M., Chahm An, A. Kerstens and C.L. Brooks III. [email protected]: A "Protein Structure Prediction Supercomputer' Based on Global Computing. IEEE Transactions on Parallel and Distributed Systems (2006). DOI: 10.1109/TPDS.2006.110. ([email protected])
  8. Misura, Kira M. S., Dylan Chivian, Carol A. Rohl, David E. Kim and David Baker. Physically realistic homology models built with ROSETTA can be more accurate than their templates. Proceedings of the National Academy of Sciences of the United States of America (2006). DOI: 10.1073/pnas.0509355103. ([email protected])
  9. Yarov-Yarovoy, Vladimir, Jack Schonbrun and David Baker. Multipass membrane protein structure prediction using Rosetta. Proteins (2006). DOI: 10.1002/prot.20817. ([email protected])
  10. Yarov-Yarovoy, Vladimir, David Baker and William A. Catterall. Voltage sensor conformations in the open and closed states in ROSETTA structural models of K(+) channels. Proceedings of the National Academy of Sciences of the United States of America (2006). DOI: 10.1073/pnas.0602350103. ([email protected])
  11. Thompson, Michael J., Stuart A. Sievers, John Karanicolas, Magdalena I. Ivanova, David Baker and David Eisenberg. The 3D profile method for identifying fibril-forming segments of proteins. Proceedings of the National Academy of Sciences (2006). DOI: 10.1073/pnas.0511295103. ([email protected])
  12. Sprague, Elizabeth R., Chu Wang, David Baker and Pamela J. Bjorkman. Crystal Structure of the HSV-1 Fc Receptor Bound to Fc Reveals a Mechanism for Antibody Bipolar Bridging. PLOS Biology (2006). DOI: 10.1371/journal.pbio.0040148. ([email protected])
  13. Ashworth, Justin, James J. Havranek, Carlos M. Duarte, Django Sussman, Raymond J. Monnat, Barry L. Stoddard and David Baker. Computational redesign of endonuclease DNA binding and cleavage specificity. Nature (2006). DOI: 10.1038/nature04818. ([email protected])
  14. Baker, Matthew L., Wen Jiang, William J. Wedemeyer, Frazer J. Rixon, David Baker and Wah Chiu. Ab Initio Modeling of the Herpesvirus VP26 Core Domain Assessed by CryoEM Density. PLOS Computational Biology (2006). DOI: 10.1371/journal.pcbi.0020146. ([email protected])
  15. Palmer, Amy E., Marta Giacomello, Tanja Kortemme, S. Andrew Hires, Varda Lev-Ram, David Baker and Roger Y. Tsien. Ca2+ Indicators Based on Computationally Redesigned Calmodulin-Peptide Pairs. Chemistry & Biology (2006). DOI: 10.1016/j.chembiol.2006.03.007. ([email protected])
  16. Joachimiak, Lukasz A., Tanja Kortemme, Barry L. Stoddard and David Baker. Computational Design of a New Hydrogen Bond Network and at Least a 300-fold Specificity Switch at a Protein−Protein Interface. Journal of Molecular Biology (2006). DOI: 10.1016/j.jmb.2006.05.022. ([email protected])
  17. Morozov, Alexandre V., Kiril Tsemekhman and David Baker. Electron Density Redistribution Accounts for Half the Cooperativity of α Helix Formation. The Journal of Physical Chemistry B (2006). DOI: 10.1021/jp057161f. ([email protected])
  18. Goobes, Gil, Rivka Goobes, Ora Schueler-Furman, David Baker, Patrick S. Stayton and Gary P. Drobny. Folding of the C-terminal bacterial binding domain in statherin upon adsorption onto hydroxyapatite crystals. Proceedings of the National Academy of Sciences (2006). DOI: 10.1073/pnas.0607193103. ([email protected])
  19. Dobson, Neil, Gautam Dantas, David Baker and Gabriele Varani. High-Resolution Structural Validation of the Computational Redesign of Human U1A Protein. Structure (2006). DOI: 10.1016/j.str.2006.02.011. ([email protected])
  20. Chivian, Dylan and David Baker. Homology modeling using parametric alignment ensemble generation with consensus and energy-based model selection. Nucleic Acids Research (2006). DOI: 10.1093/nar/gkl480. ([email protected])
  21. Bradley, Philip and David Baker. Improved beta-protein structure prediction by multilevel optimization of nonlocal strand pairings and local backbone conformation. Proteins: Structure, Function, and Bioinformatics (2006). DOI: 10.1002/prot.21133. ([email protected])
  22. Meiler, Jens and David Baker. ROSETTALIGAND: Protein-small molecule docking with full side-chain flexibility. Proteins: Structure, Function, and Bioinformatics (2006). DOI: 10.1002/prot.21086. ([email protected])
  23. Baker, David. Prediction and design of macromolecular structures and interactions. Philosophical Transactions of the Royal Society B: Biological Sciences (2006). DOI: 10.1098/rstb.2005.1803. ([email protected])
  24. Zanghellini, Alexandre, Lin Jiang, Andrew M. Wollacott, Gong Cheng, Jens Meiler, Eric A. Althoff, Daniela Röthlisberger and David Baker. New algorithms and an in silico benchmark for computational enzyme design. Protein Science (2006). DOI: 10.1110/ps.062353106. ([email protected])
  25. Dantas, Gautam, Alexander L. Watters, Bradley M. Lunde et al. Mis-translation of a Computationally Designed Protein Yields an Exceptionally Stable Homodimer: Implications for Protein Engineering and Evolution. Journal of Molecular Biology (2006). DOI: 10.1016/j.jmb.2006.07.092. ([email protected])
  26. Sood, Vanita D. and David Baker. Recapitulation and Design of Protein Binding Peptide Structures and Sequences. Journal of Molecular Biology (2006). DOI: 10.1016/j.jmb.2006.01.045. ([email protected])
  27. Rattei, T. SIMAP: the similarity matrix of proteins. Nucleic Acids Research (2006). DOI: 10.1093/nar/gkj106. (SIMAP)
  28. Loewe, Laurence. Quantifying the genomic decay paradox due to Muller's ratchet in human mitochondrial DNA. Genetical Research (2006). DOI: 10.1017/S0016672306008123. ([email protected] ([email protected]))
  29. Braun, Jonathan and Steven Collicott. Zero-Gravity Stability of Droplets in a Bent Circular Cylinder. 44th AIAA Aerospace Sciences Meeting and Exhibit (2006). DOI: 10.2514/6.2006-732. (µFluids)
  30. Manning, Robert and Steven Collicott. Bubble Penetration Through a Single Layer Sphere Bed. 44th AIAA Aerospace Sciences Meeting and Exhibit (2006). DOI: 10.2514/6.2006-736. (µFluids)


  1. Stainforth, D. A., T. Aina, C. Christensen et al. Uncertainty in predictions of the climate response to rising levels of greenhouse gases. Nature (2005). DOI: 10.1038/nature03301. (
  2. Frame, D. J., B. B. B. Booth, J. A. Kettleborough, D. A. Stainforth, J. M. Gregory, M. Collins and M. R. Allen. Constraining climate forecasts: The role of prior assumptions. Geophysical Research Letters (2005). DOI: 10.1029/2004GL022241. (
  3. Piani, C., D. J. Frame, D. A. Stainforth and M. R. Allen. Constraints on climate change from a multi-thousand member ensemble of simulations. Geophysical Research Letters (2005). DOI: 10.1029/2005GL024452. (
  4. Taufer, M., M. Crowley, D. J. Price, A. A. Chien and C. L. Brooks. Study of a highly accurate and fast protein-ligand docking method based on molecular dynamics. Concurrency and Computation: Practice and Experience (2005). DOI: 10.1002/cpe.949. ([email protected])
  5. Taufer, M., D. Anderson, P. Cicotti and C.L. Brooks. Homogeneous Redundancy: a Technique to Ensure Integrity of Molecular Simulation Results Using Public Computing. 19th IEEE International Parallel and Distributed Processing Symposium (2005). DOI: 10.1109/IPDPS.2005.247. ([email protected])
  6. Taufer, M., P.J. Teller, D.P. Anderson and C.L. Brooks. Metrics for effective resource management in global computing environments. First International Conference on e-Science and Grid Computing (e-Science'05) (2005). DOI: 10.1109/E-SCIENCE.2005.58. ([email protected])
  7. Bradley, Philip, Lars Malmström, Bin Qian et al. Free modeling with Rosetta in CASP6. Proteins (2005). DOI: 10.1002/prot.20729. ([email protected])
  8. Chivian, Dylan, David E. Kim, Lars Malmström, Jack Schonbrun, Carol A. Rohl and David Baker. Prediction of CASP6 structures using automated Robetta protocols. Proteins (2005). DOI: 10.1002/prot.20733. ([email protected])
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  16. Schueler-Furman, Ora, Chu Wang, Phil Bradley, Kira Misura and David Baker. Progress in Modeling of Protein Structures and Interactions. Science (2005). DOI: 10.1126/science.1112160. ([email protected])
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  18. Morozov, A. V. Protein-DNA binding specificity predictions with structural models. Nucleic Acids Research (2005). DOI: 10.1093/nar/gki875. ([email protected])
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