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Firas Khatib, Ph.D. - Publications

Affiliations: 
2008 University of California, Santa Cruz, Santa Cruz, CA, United States 
Area:
Bioinformatics Biology
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19 high-probability publications. We are testing a new system for linking publications to authors. You can help! If you notice any inaccuracies, please sign in and mark papers as correct or incorrect matches. If you identify any major omissions or other inaccuracies in the publication list, please let us know.

Year Citation  Score
2020 Leman JK, Weitzner BD, Lewis SM, Adolf-Bryfogle J, Alam N, Alford RF, Aprahamian M, Baker D, Barlow KA, Barth P, Basanta B, Bender BJ, Blacklock K, Bonet J, Boyken SE, ... ... Khatib F, et al. Macromolecular modeling and design in Rosetta: recent methods and frameworks. Nature Methods. PMID 32483333 DOI: 10.1038/S41592-020-0848-2  0.431
2019 Khatib F, Desfosses A, Koepnick B, Flatten J, Popović Z, Baker D, Cooper S, Gutsche I, Horowitz S. Building de novo cryo-electron microscopy structures collaboratively with citizen scientists. Plos Biology. 17: e3000472. PMID 31714936 DOI: 10.1371/Journal.Pbio.3000472  0.535
2019 Koepnick B, Flatten J, Husain T, Ford A, Silva DA, Bick MJ, Bauer A, Liu G, Ishida Y, Boykov A, Estep RD, Kleinfelter S, Nørgård-Solano T, Wei L, Players F, ... ... Khatib F, et al. De novo protein design by citizen scientists. Nature. PMID 31168091 DOI: 10.1038/S41586-019-1274-4  0.541
2018 Keasar C, McGuffin LJ, Wallner B, Chopra G, Adhikari B, Bhattacharya D, Blake L, Bortot LO, Cao R, Dhanasekaran BK, Dimas I, Faccioli RA, Faraggi E, Ganzynkowicz R, Ghosh S, ... ... Khatib F, et al. An analysis and evaluation of the WeFold collaborative for protein structure prediction and its pipelines in CASP11 and CASP12. Scientific Reports. 8: 9939. PMID 29967418 DOI: 10.1038/s41598-018-26812-8  0.738
2017 Kleffner R, Flatten J, Leaver-Fay A, Baker D, Siegel JB, Khatib F, Cooper S. Foldit Standalone: a video game-derived protein structure manipulation interface using Rosetta. Bioinformatics (Oxford, England). PMID 28481970 DOI: 10.1093/Bioinformatics/Btx283  0.765
2016 Horowitz S, Koepnick B, Martin R, Tymieniecki A, Winburn AA, Cooper S, Flatten J, Rogawski DS, Koropatkin NM, Hailu TT, Jain N, Koldewey P, Ahlstrom LS, Chapman MR, Sikkema AP, ... ... Khatib F, et al. Corrigendum: Determining crystal structures through crowdsourcing and coursework. Nature Communications. 7: 13392. PMID 27779204 DOI: 10.1038/Ncomms13392  0.398
2016 Horowitz S, Koepnick B, Martin R, Tymieniecki A, Winburn AA, Cooper S, Flatten J, Rogawski DS, Koropatkin NM, Hailu TT, Jain N, Koldewey P, Ahlstrom LS, Chapman MR, Sikkema AP, ... ... Khatib F, et al. Determining crystal structures through crowdsourcing and coursework. Nature Communications. 7: 12549. PMID 27633552 DOI: 10.1038/Ncomms12549  0.488
2016 Rashid MA, Iqbal S, Khatib F, Hoque MT, Sattar A. Guided macro-mutation in a graded energy based genetic algorithm for protein structure prediction. Computational Biology and Chemistry. 61: 162-177. PMID 26878130 DOI: 10.1016/J.Compbiolchem.2016.01.008  0.385
2016 Rashid MA, Khatib F, Hoque MT, Sattar A. An Enhanced Genetic Algorithm for Ab Initio Protein Structure Prediction Ieee Transactions On Evolutionary Computation. 20: 627-644. DOI: 10.1109/Tevc.2015.2505317  0.424
2014 Khoury GA, Liwo A, Khatib F, Zhou H, Chopra G, Bacardit J, Bortot LO, Faccioli RA, Deng X, He Y, Krupa P, Li J, Mozolewska MA, Sieradzan AK, Smadbeck J, et al. WeFold: a coopetition for protein structure prediction. Proteins. 82: 1850-68. PMID 24677212 DOI: 10.1002/Prot.24538  0.517
2013 Cooper S, Khatib F, Baker D. Increasing public involvement in structural biology. Structure (London, England : 1993). 21: 1482-4. PMID 24010706 DOI: 10.1016/J.Str.2013.08.009  0.361
2012 Eiben CB, Siegel JB, Bale JB, Cooper S, Khatib F, Shen BW, Players F, Stoddard BL, Popovic Z, Baker D. Increased Diels-Alderase activity through backbone remodeling guided by Foldit players. Nature Biotechnology. 30: 190-2. PMID 22267011 DOI: 10.1038/Nbt.2109  0.654
2011 Gilski M, Kazmierczyk M, Krzywda S, Zábranská H, Cooper S, Popović Z, Khatib F, DiMaio F, Thompson J, Baker D, Pichová I, Jaskolski M. High-resolution structure of a retroviral protease folded as a monomer. Acta Crystallographica. Section D, Biological Crystallography. 67: 907-14. PMID 22101816 DOI: 10.1107/S0907444911035943  0.563
2011 Khatib F, Cooper S, Tyka MD, Xu K, Makedon I, Popovic Z, Baker D, Players F. Algorithm discovery by protein folding game players. Proceedings of the National Academy of Sciences of the United States of America. 108: 18949-53. PMID 22065763 DOI: 10.1073/Pnas.1115898108  0.497
2011 Khatib F, DiMaio F, Cooper S, Kazmierczyk M, Gilski M, Krzywda S, Zabranska H, Pichova I, Thompson J, Popović Z, Jaskolski M, Baker D. Crystal structure of a monomeric retroviral protease solved by protein folding game players. Nature Structural & Molecular Biology. 18: 1175-7. PMID 21926992 DOI: 10.1038/Nsmb.2119  0.618
2010 Cooper S, Khatib F, Treuille A, Barbero J, Lee J, Beenen M, Leaver-Fay A, Baker D, Popovi? Z, Players F. Predicting protein structures with a multiplayer online game. Nature. 466: 756-60. PMID 20686574 DOI: 10.1038/Nature09304  0.715
2010 Cooper S, Treuille A, Barbero J, Leaver-Fay A, Tuite K, Khatib F, Snyder AC, Beenen M, Salesin D, Baker D, Popović Z. The challenge of designing scientific discovery games Fdg 2010 - Proceedings of the 5th International Conference On the Foundations of Digital Games. 40-47. DOI: 10.1145/1822348.1822354  0.687
2009 Khatib F, Rohl CA, Karplus K. Pokefind: a novel topological filter for use with protein structure prediction. Bioinformatics (Oxford, England). 25: i281-8. PMID 19478000 DOI: 10.1093/Bioinformatics/Btp198  0.764
2006 Khatib F, Weirauch MT, Rohl CA. Rapid knot detection and application to protein structure prediction. Bioinformatics (Oxford, England). 22: e252-9. PMID 16873480 DOI: 10.1093/Bioinformatics/Btl236  0.732
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