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Sarel Fleishman - Publications

Affiliations: 
Biological Chemistry Weizmann Institute of Science, Rehovot, Israel 
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Year Citation  Score
2025 Lipsh-Sokolik R, Fleishman SJ. htFuncLib: Designing Libraries of Active-site Multipoint Mutants for Protein Optimization. Journal of Molecular Biology. 169011. PMID 40133789 DOI: 10.1016/j.jmb.2025.169011  0.335
2025 Sa JD, Krauss L, Smith L, D'Andrea L, Chan LJ, Abraham A, Kiernan-Walker N, Mazhari R, Lamont M, Lim PS, Sattabongkot J, Lacerda MV, Wini L, Mueller I, Longley RJ, ... ... Fleishman SJ, et al. Stabilized designs of the malaria adhesin protein PvRBP2b for use as a potential diagnostic for Plasmodium vivax. The Journal of Biological Chemistry. 108290. PMID 39938801 DOI: 10.1016/j.jbc.2025.108290  0.423
2024 Hoch SY, Netzer R, Weinstein JY, Krauss L, Hakeny K, Fleishman SJ. GGAssembler: Precise and economical design and synthesis of combinatorial mutation libraries. Protein Science : a Publication of the Protein Society. 33: e5169. PMID 39283039 DOI: 10.1002/pro.5169  0.322
2024 Listov D, Goverde CA, Correia BE, Fleishman SJ. Opportunities and challenges in design and optimization of protein function. Nature Reviews. Molecular Cell Biology. PMID 38565617 DOI: 10.1038/s41580-024-00718-y  0.344
2023 Tennenhouse A, Khmelnitsky L, Khalaila R, Yeshaya N, Noronha A, Lindzen M, Makowski EK, Zaretsky I, Sirkis YF, Galon-Wolfenson Y, Tessier PM, Abramson J, Yarden Y, Fass D, Fleishman SJ. Computational optimization of antibody humanness and stability by systematic energy-based ranking. Nature Biomedical Engineering. PMID 37550425 DOI: 10.1038/s41551-023-01079-1  0.647
2023 Khersonsky O, Goldsmith M, Zaretsky I, Hamer-Rogotner S, Dym O, Unger T, Yona M, Fridmann-Sirkis Y, Fleishman SJ. Stable Mammalian Serum Albumins Designed for Bacterial Expression. Journal of Molecular Biology. 435: 168191. PMID 37385581 DOI: 10.1016/j.jmb.2023.168191  0.331
2022 Khersonsky O, Fleishman SJ. What Have We Learned from Design of Function in Large Proteins? Biodesign Research. 2022: 9787581. PMID 37850148 DOI: 10.34133/2022/9787581  0.311
2022 Cohen-Dvashi H, Weinstein J, Katz M, Ashkenazy-Eilon M, Mor Y, Shimon A, Achdout H, Tamir H, Israely T, Strobelt R, Shemesh M, Stoler-Barak L, Shulman Z, Paran N, Fleishman SJ, et al. Anti-SARS-CoV-2 immunoadhesin remains effective against Omicron and other emerging variants of concern. Iscience. 105193. PMID 36188189 DOI: 10.1016/j.isci.2022.105193  0.307
2022 Listov D, Lipsh-Sokolik R, Rosset S, Yang C, Correia BE, Fleishman SJ. Assessing and enhancing foldability in designed proteins. Protein Science : a Publication of the Protein Society. 31: e4400. PMID 36040259 DOI: 10.1002/pro.4400  0.352
2022 Nikitin D, Mican J, Toul M, Bednar D, Peskova M, Kittova P, Thalerova S, Vitecek J, Damborsky J, Mikulik R, Fleishman SJ, Prokop Z, Marek M. Computer-aided engineering of staphylokinase toward enhanced affinity and selectivity for plasmin. Computational and Structural Biotechnology Journal. 20: 1366-1377. PMID 35386102 DOI: 10.1016/j.csbj.2022.03.004  0.316
2022 Leonard AC, Weinstein JJ, Steiner PJ, Erbse AH, Fleishman SJ, Whitehead TA. Stabilization of the SARS-CoV-2 receptor binding domain by protein core redesign and deep mutational scanning. Protein Engineering, Design & Selection : Peds. 35. PMID 35325236 DOI: 10.1093/protein/gzac002  0.366
2022 Mechaly A, Diamant E, Alcalay R, Ben David A, Dor E, Torgeman A, Barnea A, Girshengorn M, Levin L, Epstein E, Tennenhouse A, Fleishman SJ, Zichel R, Mazor O. Highly Specific Monoclonal Antibody Targeting the Botulinum Neurotoxin Type E Exposed SNAP-25 Neoepitope. Antibodies (Basel, Switzerland). 11. PMID 35323195 DOI: 10.3390/antib11010021  0.404
2021 Leonard AC, Weinstein JJ, Steiner PJ, Erbse AH, Fleishman SJ, Whitehead TA. Stabilization of the SARS-CoV-2 Receptor Binding Domain by Protein Core Redesign and Deep Mutational Scanning. Biorxiv : the Preprint Server For Biology. PMID 34845448 DOI: 10.1101/2021.11.22.469552  0.423
2021 Makdasi E, Zvi A, Alcalay R, Noy-Porat T, Peretz E, Mechaly A, Levy Y, Epstein E, Chitlaru T, Tennenhouse A, Aftalion M, Gur D, Paran N, Tamir H, Zimhony O, ... ... Fleishman SJ, et al. The neutralization potency of anti-SARS-CoV-2 therapeutic human monoclonal antibodies is retained against viral variants. Cell Reports. 109679. PMID 34464610 DOI: 10.1016/j.celrep.2021.109679  0.398
2021 Vimer S, Ben-Nissan G, Marty M, Fleishman SJ, Sharon M. Direct-MS analysis of antibody-antigen complexes. Proteomics. e2000300. PMID 34310051 DOI: 10.1002/pmic.202000300  0.396
2020 Malladi SK, Schreiber D, Pramanick I, Sridevi MA, Goldenzweig A, Dutta S, Fleishman SJ, Varadarajan R. One-step sequence and structure-guided optimization of HIV-1 envelope gp140. Current Research in Structural Biology. 2: 45-55. PMID 33688632 DOI: 10.1016/j.crstbi.2020.04.001  0.356
2020 Weinstein JJ, Goldenzweig A, Hoch SY, Fleishman SJ. PROSS 2: a new server for the design of stable and highly expressed protein variants. Bioinformatics (Oxford, England). PMID 33367682 DOI: 10.1093/bioinformatics/btaa1071  0.316
2020 Warszawski S, Borenstein Katz A, Lipsh R, Khmelnitsky L, Ben Nissan G, Javitt G, Dym O, Unger T, Knop O, Albeck S, Diskin R, Fass D, Sharon M, Fleishman SJ. Correction: Optimizing antibody affinity and stability by the automated design of the variable light-heavy chain interfaces. Plos Computational Biology. 16: e1008382. PMID 33085658 DOI: 10.1371/journal.pcbi.1008382  0.606
2020 Weinstein J, Khersonsky O, Fleishman SJ. Practically useful protein-design methods combining phylogenetic and atomistic calculations. Current Opinion in Structural Biology. 63: 58-64. PMID 32505941 DOI: 10.1016/j.sbi.2020.04.003  0.302
2019 Warszawski S, Katz AB, Lipsh R, Khmelnitsky L, Ben Nissan G, Javitt G, Dym O, Unger T, Knop O, Albeck S, Diskin R, Fass D, Sharon M, Fleishman SJ. Optimizing antibody affinity and stability by the automated design of the variable light-heavy chain interfaces. Plos Computational Biology. 15: e1007207. PMID 31442220 DOI: 10.1371/Journal.Pcbi.1007207  0.656
2019 Warszawski S, Dekel E, Campeotto I, Marshall JM, Wright KE, Lyth O, Knop O, Regev-Rudzki N, Higgins MK, Draper SJ, Baum J, Fleishman SJ. Design of a basigin-mimicking inhibitor targeting the malaria invasion protein RH5. Proteins. PMID 31325330 DOI: 10.1002/prot.25786  0.309
2018 Lapidoth G, Parker J, Prilusky J, Fleishman SJ. AbPredict 2: a server for accurate and unstrained structure prediction of antibody variable domains. Bioinformatics (Oxford, England). PMID 30951584 DOI: 10.1093/bioinformatics/bty822  0.393
2018 Amon R, Grant OC, Leviatan Ben-Arye S, Makeneni S, Nivedha AK, Marshanski T, Norn C, Yu H, Glushka JN, Fleishman SJ, Chen X, Woods RJ, Padler-Karavani V. A combined computational-experimental approach to define the structural origin of antibody recognition of sialyl-Tn, a tumor-associated carbohydrate antigen. Scientific Reports. 8: 10786. PMID 30018351 DOI: 10.1038/S41598-018-29209-9  0.475
2017 Baran D, Pszolla MG, Lapidoth GD, Norn C, Dym O, Unger T, Albeck S, Tyka MD, Fleishman SJ. Principles for computational design of binding antibodies. Proceedings of the National Academy of Sciences of the United States of America. PMID 28973872 DOI: 10.1073/pnas.1707171114  0.561
2017 Khersonsky O, Fleishman SJ. Incorporating an allosteric regulatory site in an antibody through backbone design. Protein Science : a Publication of the Protein Society. 26: 807-813. PMID 28142198 DOI: 10.1002/pro.3126  0.496
2017 Norn CH, Lapidoth G, Fleishman SJ. High-accuracy modeling of antibody structures by a search for minimum-energy recombination of backbone fragments. Proteins. 85: 30-38. PMID 27717001 DOI: 10.1002/prot.25185  0.4
2017 Elazar A, Weinstein J, Fleishman S. Deciphering Membrane Protein Energetics using Deep Sequencing; Towards Robust Design and Structure Prediction of Membrane Proteins Biophysical Journal. 112. DOI: 10.1016/J.Bpj.2016.11.502  0.314
2016 Reichen C, Hansen S, Forzani C, Honegger A, Fleishman SJ, Zhou T, Parmeggiani F, Ernst P, Madhurantakam C, Ewald C, Mittl PR, Zerbe O, Baker D, Caflisch A, Plückthun A. Computationally Designed Armadillo Repeat Proteins for Modular Peptide Recognition. Journal of Molecular Biology. PMID 27664438 DOI: 10.1016/J.Jmb.2016.09.012  0.347
2016 Goldenzweig A, Goldsmith M, Hill SE, Gertman O, Laurino P, Ashani Y, Dym O, Unger T, Albeck S, Prilusky J, Lieberman RL, Aharoni A, Silman I, Sussman JL, Tawfik DS, ... Fleishman SJ, et al. Automated Structure- and Sequence-Based Design of Proteins for High Bacterial Expression and Stability. Molecular Cell. PMID 27425410 DOI: 10.1016/J.Molcel.2016.06.012  0.324
2016 Grossman I, Ilani T, Fleishman SJ, Fass D. Overcoming a species-specificity barrier in development of an inhibitory antibody targeting a modulator of tumor stroma. Protein Engineering, Design & Selection : Peds. 29: 135-47. PMID 26819240 DOI: 10.1093/Protein/Gzv067  0.619
2016 Tilley DC, Fleishman S, Sack JT, Yarov-Yarovoy V. What Determines the Charybdotoxin Specificity Among Kv1 Potassium Channels? Biophysical Journal. 110: 106a-107a. DOI: 10.1016/J.Bpj.2015.11.631  0.31
2015 Lapidoth GD, Baran D, Pszolla GM, Norn C, Alon A, Tyka MD, Fleishman SJ. AbDesign: An algorithm for combinatorial backbone design guided by natural conformations and sequences. Proteins. 83: 1385-406. PMID 25670500 DOI: 10.1002/Prot.24779  0.626
2014 Warszawski S, Netzer R, Tawfik DS, Fleishman SJ. A "fuzzy"-logic language for encoding multiple physical traits in biomolecules. Journal of Molecular Biology. 426: 4125-38. PMID 25311857 DOI: 10.1016/j.jmb.2014.10.002  0.323
2014 Strauch EM, Fleishman SJ, Baker D. Computational design of a pH-sensitive IgG binding protein. Proceedings of the National Academy of Sciences of the United States of America. 111: 675-80. PMID 24381156 DOI: 10.1073/Pnas.1313605111  0.352
2013 Schreiber G, Fleishman SJ. Computational design of protein-protein interactions Current Opinion in Structural Biology. 23: 903-910. PMID 23993666 DOI: 10.1016/j.sbi.2013.08.003  0.361
2013 Procko E, Hedman R, Hamilton K, Seetharaman J, Fleishman SJ, Su M, Aramini J, Kornhaber G, Hunt JF, Tong L, Montelione GT, Baker D. Computational design of a protein-based enzyme inhibitor. Journal of Molecular Biology. 425: 3563-75. PMID 23827138 DOI: 10.1016/J.Jmb.2013.06.035  0.372
2013 Khare SD, Fleishman SJ. Emerging themes in the computational design of novel enzymes and protein-protein interfaces. Febs Letters. 587: 1147-54. PMID 23262222 DOI: 10.1016/j.febslet.2012.12.009  0.339
2013 Fridman Y, Gur E, Fleishman SJ, Aharoni A. Computational protein design suggests that human PCNA-partner interactions are not optimized for affinity Proteins: Structure, Function and Bioinformatics. 81: 341-348. PMID 23011891 DOI: 10.1002/prot.24190  0.346
2012 Whitehead TA, Chevalier A, Song Y, Dreyfus C, Fleishman SJ, De Mattos C, Myers CA, Kamisetty H, Blair P, Wilson IA, Baker D. Optimization of affinity, specificity and function of designed influenza inhibitors using deep sequencing. Nature Biotechnology. 30: 543-8. PMID 22634563 DOI: 10.1038/Nbt.2214  0.366
2012 Fleishman S. Computational Design of Proteins which Broadly Neutralize Influenza Biophysical Journal. 102: 438a. DOI: 10.1016/J.Bpj.2011.11.2399  0.464
2012 Strauch E, Fleishman SJ, Baker D. De Novo Design of Protein Binders: Targeting Human IgG (Fc) Biophysical Journal. 102: 189a. DOI: 10.1016/J.Bpj.2011.11.1033  0.4
2011 Fleishman SJ, Whitehead TA, Strauch EM, Corn JE, Qin S, Zhou HX, Mitchell JC, Demerdash ON, Takeda-Shitaka M, Terashi G, Moal IH, Li X, Bates PA, Zacharias M, Park H, et al. Community-wide assessment of protein-interface modeling suggests improvements to design methodology. Journal of Molecular Biology. 414: 289-302. PMID 22001016 DOI: 10.1016/J.Jmb.2011.09.031  0.334
2011 Fleishman SJ, Corn JE, Strauch EM, Whitehead TA, Karanicolas J, Baker D. Hotspot-centric de novo design of protein binders. Journal of Molecular Biology. 413: 1047-62. PMID 21945116 DOI: 10.1016/J.Jmb.2011.09.001  0.327
2011 Fleishman SJ, Whitehead TA, Ekiert DC, Dreyfus C, Corn JE, Strauch EM, Wilson IA, Baker D. Computational design of proteins targeting the conserved stem region of influenza hemagglutinin. Science (New York, N.Y.). 332: 816-21. PMID 21566186 DOI: 10.1126/Science.1202617  0.362
2007 Fuchs A, Martin-Galiano AJ, Kalman M, Fleishman S, Ben-Tal N, Frishman D. Co-evolving residues in membrane proteins. Bioinformatics (Oxford, England). 23: 3312-9. PMID 18065429 DOI: 10.1093/Bioinformatics/Btm515  0.303
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