2024
- Shor B, Schneidman-Duhovny D. CombFold: Predicting structures of large protein assemblies using combinatorial assembly algorithm and AlphaFold2. Nat Methods, 2024 [ Full text ]
2023
- Cohen T, Schneidman-Duhovny D. Epitope-specific antibody design using diffusion models on the latent space of ESM embeddings. NeurIPS 2023 MLSB & GenBio Workshops [ Full text ]
- Oppenheim T, Radzinski M, Braitbard M, Brielle ES, Yogev O, Goldberger E, Yesharim Y, Ravid T, Schneidman-Duhovny D, Reichmann D. The Cdc48 N-terminal domain has a molecular switch that mediates the Npl4-Ufd1-Cdc48 complex formation. Structure 31, 1-16, 2023 [ Full text ]
- Cohen S, Schneidman-Duhovny D. A deep learning model for predicting optimal distance range in crosslinking mass spectrometry data. Proteomics. e2200341, 2023 [ Full text ]
- Cohen T, Halfon M, Carter L, Sharkey B, Jain T, Sivasubramanian A, Schneidman-Duhovny D. Multi-state modeling of antibody-antigen complexes with SAXS profiles and deep-learning models. Methods Enzymol. 678:237-262, 2023 [ Full text ]
2022
- Cohen T, Schneidman-Duhovny D. End-to-end accurate and high-throughput modeling of antibody-antigen complexes. NeurIPS 2022 MLSB Workshop [ Full text ]
- Halfon M, Cohen T, Fattal R, Schneidman-Duhovny D. ContactNet: Geometric-Based Deep Learning Model for Predicting Protein-Protein Interactions. NeurIPS 2022 MLSB Workshop [ Full text ]
- Tubiana J, Xiang Y, Fan L, Wolfson HJ, Chen K, Schneidman-Duhovny D, Shi Y. Reduced B cell antigenicity of Omicron lowers host serologic response. Cell Rep. 41(3):111512, 2022 [ Full text ]
- Tubiana J, Schneidman-Duhovny D, Wolfson HJ. ScanNet: a web server for structure-based prediction of protein binding sites with geometric deep learning. J Mol Biol. 434(19):167758, 2022 [ Full text ]
- Cohen T, Halfon M, Schneidman-Duhovny D. NanoNet: Rapid and accurate end-to-end nanobody modeling by deep learning. Front Immunol. 13:958584, 2022 [ Full text ]
- Xiang Y, Huang W, Liu H, Sang Z, Nambulli S, Tubiana J, Williams KL Jr, Duprex WP, Schneidman-Duhovny D, Wilson IA, Taylor DJ, Shi Y. Superimmunity by pan-sarbecovirus nanobodies. Cell Rep. 39(13):111004, 2022 [ Full text ]
- Tubiana J, Schneidman-Duhovny D, Wolfson HJ. ScanNet: an interpretable geometric deep learning model for structure-based protein binding site prediction. Nat Methods. 19(6):730-739, 2022 [ Full text ]
- Lansky S, Salama R, Biarnés X, Shwartstein O, Schneidman-Duhovny D, Planas A, Shoham Y, Shoham G. Integrative structure determination reveals functional global flexibility for an ultra-multimodular arabinanase. Commun Biol. 5(1):465, 2022 [ Full text ]
2021
- Shen Z, Xiang Y, Vergara S, Chen A, Xiao Z, Santiago U, Jin C, Sang Z, Luo J, Chen K, Schneidman-Duhovny D, Camacho C, Calero G, Hu B, Shi Y. A resource of high-quality and versatile nanobodies for drug delivery. iScience. 24(9):103014, 2021 [ Full text ]
- Slavin M, Zamel J, Zohar K, Eliyahu T, Braitbard M, Brielle E, Baraz L, Stolovich-Rain M, Friedman A, Wolf DG, Rouvinski A, Linial M, Schneidman-Duhovny D, Kalisman N. Targeted in situ cross-linking mass spectrometry and integrative modeling reveal the architectures of three proteins from SARS-CoV-2. Proc Natl Acad Sci USA. 118(34), 2021 [ Full text ]
- Sun D, Sang Z, Kim YJ, Xiang Y, Cohen T, Belford AK, Huet A, Conway JF, Sun J, Taylor DJ, Schneidman-Duhovny D, Zhang C, Huang W, Shi Y. Potent neutralizing nanobodies resist convergent circulating variants of SARS-CoV-2 by targeting diverse and conserved epitopes. Nat Commun. 12(1):4676, 2021 [ Full text ]
- Xiang Y, Sang Z, Bitton L, Xu J, Liu Y, Schneidman-Duhovny D, Shi Y. Integrative proteomics identifies thousands of distinct, multi-epitope, and high-affinity nanobodies. Cell Syst. 12(3):220-234, 2021 [ Full text ]
- Steimle S, van Eeuwen T, Ozturk Y, Kim HJ, Braitbard M, Selamoglu N, Garcia BA, Schneidman-Duhovny D, Murakami K, Daldal F. Cryo-EM structures of engineered active bc1-cbb3 type CIII2CIV super-complexes and electronic communication between the complexes. Nat Commun. 12(1):929, 2021 [ Full text ]
2020
- Xiang Y, Nambulli S, Xiao Z, Liu H, Sang Z, Duprex WP, Schneidman-Duhovny D, Zhang C, Shi Y. Versatile and multivalent nanobodies efficiently neutralize SARS-CoV-2. Science 370(6523):1479-1484, 2020 [Full text ]
- Braberg H, Echeverria I, Bohn S, Cimermancic P, Shiver A, Alexander R, Xu J, Shales M, Dronamraju R, Jiang S, Dwivedi G, Bogdanoff D, Chaung KK, Hüttenhain R, Wang S, Mavor D, Pellarin R, Schneidman D, Bader JS, Fraser JS, Morris J, Haber JE, Strahl BD, Gross CA, Dai J, Boeke JD, Sali A, Krogan NJ. Genetic interaction mapping informs integrative structure determination of protein complexes. Science 370(6522), 2020
- Brielle ES, Schneidman-Duhovny D, Linial M. The SARS-CoV-2 exerts a distinctive strategy for interacting with the ACE2 human receptor. Viruses 12(5):497, 2020 [Full text ]
- Banne E, Falik-Zaccai T, Brielle E, Kalfon L, Ladany H, Klinger D, Schneidman-Duhovny D, Linial M. De novo STXBP1 mutation in a child with developmental delay and spasticity reveals a major structural alteration in the interface with syntaxin 1A. Am J Med Genet B Neuropsychiatr Genet. 183(7):412-422, 2020 [Full text ]
- Slavotinek A, Misceo D, Htun S, Mathisen L, Frengen E, Foreman M, Hurtig JE, Enyenihi L, Sterrett MC, Leung SW, Schneidman-Duhovny D, Estrada-Veras J, Duncan JL, Haaxma CA, Kamsteeg EJ, Xia V, Beleford D, Si Y, Douglas G, Treidene HE, van Hoof A, Fasken MB, Corbett AH. Biallelic variants in the RNA exosome gene EXOSC5 are associated with developmental delays, short stature, cerebellar hypoplasia and motor weakness. Hum Mol Genet. 29(13):2218-2239, 2020 [Full text ]
- Leclère L, Nir TS, Bazarsky M, Braitbard M, Schneidman-Duhovny D, Gat U. Dynamic Evolution of the Cthrc1 Genes, a Newly Defined Collagen-Like Family. Genome Biol Evol. 12(2):3957-3970, 2020 [Full text ]
- Schneidman-Duhovny D, Wolfson HJ. Modeling of Multimolecular Complexes. Methods Mol Biol. 2112:163-174, 2020 [Full text ]
2019
- Lensink et al. Blind prediction of homo‐and hetero‐protein complexes: The CASP13‐CAPRI experiment. Proteins: Structure, Function, and Bioinformatics 87(12),1200-1221, 2019
- Lisnyansky Bar-El M, Lee SY, Ki AY, Kapelushnik N, Loewenstein A, Chung KY, Schneidman-Duhovny D, Giladi M, Newman H, Haitin Y. Structural Characterization of Full-Length Human Dehydrodolichyl Diphosphate Synthase Using an Integrative Computational and Experimental Approach. Biomolecules. 9(11), 2019
- Braitbard M, Schneidman-Duhovny D, Kalisman N. Integrative Structure Modeling: Overview and Assessment. Annu Rev Biochem. 88:113-135, 2019
- Krall M, Htun S, Schnur RE, Brooks AS, Baker L, de Alba Campomanes A, Lamont RE, Gripp KW; Care 4 Rare Canada Consortium, Schneidman-Duhovny D, Innes AM, Mancini GMS, Slavotinek AM. Biallelic sequence variants in INTS1 in patients with developmental delays, cataracts, and craniofacial anomalies. Eur J Hum Genet. 27(4):582-59, 2019
2018
- Schneidman-Duhovny D, Khuri N, Dong GQ, Winter MB, Shifrut E, Friedman N, Craik CS, Pratt KP, Paz P, Aswad F, Sali A. Predicting CD4 T-cell epitopes based on antigen cleavage, MHCII presentation, and TCR recognition. PLoS One. 13(11), 2018
- Schneidman-Duhovny D, Hammel M. Modeling Structure and Dynamics of Protein Complexes with SAXS Profiles. Methods Mol Biol. 1764:449-473, 2018
2017
- Slavotinek A, Risolino M, Losa M, Cho MT, Monaghan KG, Schneidman-Duhovny D, Parisotto S, Herkert JC, Stegmann APA, Miller K, Shur N, Chui J, Muller E, DeBrosse S, Szot JO, Chapman G, Pachter NS, Winlaw DS, Mendelsohn BA, Dalton J, Sarafoglou K, Karachunski PI, Lewis JM, Pedro H, Dunwoodie SL, Selleri L, Shieh J. De novo, deleterious sequence variants that alter the transcriptional activity of the homeoprotein PBX1 are associated with intellectual disability and pleiotropic developmental defects. Hum Mol Genet. 26(24):4849-4860, 2017
- Jahangiri A, Nguyen A, Chandra A, Sidorov MK, Yagnik G, Rick J, Han SW, Chen W, Flanigan PM, Schneidman-Duhovny D, Mascharak S, De Lay M, Imber B, Park CC, Matsumoto K, Lu K, Bergers G, Sali A, Weiss WA, Aghi MK. Cross-activating c-Met/β1 integrin complex drives metastasis and invasive resistance in cancer. Proc Natl Acad Sci U S A. 114(41):E8685-E8694, 2017
- Trewhella J, Duff AP, Durand D, Gabel F, Guss JM, Hendrickson WA, Hura GL, Jacques DA, Kirby NM, Kwan AH, Pérez J, Pollack L, Ryan TM, Sali A, Schneidman-Duhovny D, Schwede T, Svergun DI, Sugiyama M, Tainer JA, Vachette P, Westbrook J, Whitten AE. 2017 publication guidelines for structural modelling of small-angle scattering data from biomolecules in solution: an update. Acta Crystallogr D Struct Biol. 2017
- Gan W, Schneidman D, Zhang N, Ma B, Nussinov R. Probing oligomerized conformations of defensin in the membrane. Computational Protein Design, 353-362, 2017
- Chen Q, Vieth M, Timm D, Humblet C, Schneidman-Duhovny D, Chemmama IE, Sali A, Zeng W, Lu J, Liu L. Reconstruction of 3D Structures of MET Antibodies from Electron Microscopy 2D Class Averages. PLoS One. 12(4), 2017
- Michael AK, Fribourgh JL, Chelliah Y, Sandate CR, Hura GL, Schneidman-Duhovny D, Tripathi SM, Takahashi JS, Partch CL. Formation of a repressive complex in the mammalian circadian clock is mediated by the secondary pocket of CRY1. Proc Natl Acad Sci U S A. 114(7):1560-1565, 2017
2016
- Schulze-Gahmen U, Echeverria I, Stjepanovic G, Bai Y, Lu H, Schneidman-Duhovny D, Doudna JA, Zhou Q, Sali A, Hurley JH Insights into HIV-1 proviral transcription from integrative structure and dynamics of the Tat: AFF4: P-TEFb: TAR complex Elife 5:e15910, 2016
- Lamont RE, Tan WH, Innes AM, Parboosingh JS, Schneidman-Duhovny D, Rajkovic A, Pappas J, Altschwager P, DeWard S, Fulton A, Gray K, Krall M, Mehta L, Rodan LH, Saller DN Jr, Steele D, Stein D, Yatsenko SA, Bernier FP, Slavotinek AM. Expansion of phenotype and genotypic data in CRB2-related syndrome. Eur J Hum Genet. 24(10):1436-1444, 2016
- Lensink et al. Prediction of homo- and hetero-protein complexes by ab-initio and template-based docking: a CASP-CAPRI experiment. Proteins, 84(S1):323-348, 2016
- Schneidman-Duhovny D, Hammel M, Tainer JA, Sali A. FoXS, FoXSDock, and MultiFoXS: Single-state and multi-state structural modeling of proteins and their complexes based on SAXS profiles Nucleic Acids Res. 44(W1):W424-9, 2016
- Hurwitz N, Schneidman-Duhovny D, Wolfson HJ. Memdock: An α-helical membrane protein docking algorithm. Bioinformatics. 32(16):2444-50, 2016
- Cimermancic P, Weinkam P, Rettenmaier TJ, Bichmann L, Keedy DA, Woldeyes RA, Schneidman-Duhovny D, Demerdash ON, Mitchell JC, Wells JA, Fraser JS, Sali A. CryptoSite: Expanding the Druggable Proteome by Characterization and Prediction of Cryptic Binding Sites. J Mol Biol. 428(4):709-19, 2016
2015
- Parshin A, Shiver AL, Lee J, Ozerova M, Schneidman-Duhovny D, Gross CA, Borukhov S. DksA regulates RNA polymerase in Escherichia coli through a network of interactions in the secondary channel that includes Sequence Insertion 1. Proc Natl Acad Sci U S A. 112(50):E6862-71, 2015
- Carter L, Kim SJ, Schneidman-Duhovny D, Stöhr J, Poncet-Montange G, Weiss TM, Tsuruta H, Prusiner SB, Sali A. Prion Protein-Antibody Complexes Characterized by Chromatography-Coupled Small-Angle X-Ray Scattering. Biophys J. 109:793-805, 2015
- Slavotinek A, Kaylor J, Pierce H, Cahr M, DeWard SJ, Schneidman-Duhovny D, Alsadah A, Salem F, Schmajuk G, Mehta L. CRB2 mutations produce a phenotype resembling congenital nephrosis, finnish type, with cerebral ventriculomegaly and raised alpha-fetoprotein. Am J Hum Genet. 96:162-169, 2015
2014
- Schneidman-Duhovny D, Pellarin R, Sali A. Uncertainty in integrative structural modeling. Curr Opin Struct Biol. 28, 96-104, 2014 [ Abstract ]
- Shi Y, Fernandez-Martinez J, Tjioe E, Pellarin R, Kim SJ, Williams R, Schneidman-Duhovny D, Sali A, Rout MP, Chait BT. Structural characterization by cross-linking reveals the detailed architecture of a coatomer-related heptameric module from the nuclear pore complex. Mol Cell Proteomics. 13(11):2927-43, 2014
- Zeng-Elmore X, Gao XZ, Pellarin R, Schneidman-Duhovny D, Zhang XJ, Kozacka KA, Tang Y, Sali A, Chalkley RJ, Cote RH, Chu F. Molecular architecture of photoreceptor phosphodiesterase elucidated by chemical cross-linking and integrative modeling. J Mol Biol. 426(22):3713-28, 2014
- Pieper U, Webb BM, Dong GQ, Schneidman-Duhovny D, Fan H, Kim SJ, Khuri N, Spill YG, Weinkam P, Hammel M, Tainer JA, Nilges M, Sali A. ModBase, a database of annotated comparative protein structure models and associated resources. Nucleic Acids Res. 42:D336-46, 2014
- Webb B, Lasker K, Velázquez-Muriel J, Schneidman-Duhovny D, Pellarin R, Bonomi M, Greenberg C, Raveh B, Tjioe E, Russel D, Sali A. Modeling of proteins and their assemblies with the Integrative Modeling Platform. Methods Mol Biol. 1091:277-95, 2014
- Spill YG, Kim SJ, Schneidman-Duhovny D, Russel D, Webb B, Sali A, Nilges M. SAXS Merge: an automated statistical method to merge SAXS profiles using Gaussian processes. J Synchrotron Radiat. 21:203-8, 2014
2013
- Berlin K, Castañeda CA, Schneidman-Duhovny D, Sali A, Nava-Tudela A, Fushman D. Recovering a representative conformational ensemble from underdetermined macromolecular structural data. J Am Chem Soc. 135:16595-609, 2013
- Dong GQ, Fan H, Schneidman-Duhovny D, Webb B, Sali A. Optimized atomic statistical potentials: assessment of protein interfaces and loops. Bioinformatics. 29:3158-66, 2013
- Schneidman-Duhovny D, Hammel M, Tainer JA, Sali A. Accurate SAXS profile computation and its assessment by contrast variation experiments. Biophysical Journal, 105:962-74, 2013 [ FREE Full Text ]
2012
- Schneidman-Duhovny D, Rossi A, Avila-Sakar A, Kim SJ, Velázquez-Muriel J, Strop P, Liang H, Krukenberg K, Liao M, Kim HM, Sobhanifar S, Dötsch V, Rajpal A, Pons J, Agard DA, Cheng Y, Sali A. A method for integrative structure determination of protein-protein complexes. Bioinformatics, 28(24):3282-9, 2012 [ Abstract ] [ PDF ]
- Schneidman-Duhovny D, Kim SJ, Sali A. Integrative structural modeling with small angle X-ray scattering profiles. BMC Struct Biol. 12:17, 2012 [ FREE Full Text ]
- Russel D, Lasker K, Webb B, Velázquez-Muriel J, Tjioe E, Schneidman-Duhovny D, Peterson B, Sali A. Putting the pieces together: integrative modeling platform software for structure determination of macromolecular assemblies. PLoS Biol. 10:e1001244, 2012 [ FREE Full Text ]
2011
- Fan H, Schneidman-Duhovny D, Irwin JJ, Dong G, Shoichet BK, Sali A. Statistical potential for modeling and ranking of protein-ligand interactions. J Chem Inf Model. 51:3078-92, 2011 [ Abstract ]
- Yang Z, Lasker K, Schneidman-Duhovny D, Webb B, Huang CC, Pettersen EF, Goddard TD, Meng EC, Sali A, Ferrin TE. UCSF Chimera, MODELLER, and IMP: An integrated modeling system. J Struct Biol. 179:269 278, 2011 [ Abstract ]
- Webb B, Lasker K, Schneidman-Duhovny D, Tjioe E, Phillips J, Kim SJ, Velázquez-Muriel J, Russel D, Sali A. Modeling of proteins and their assemblies with the integrative modeling platform. Methods Mol Biol. 781:377-97, 2011 [ Abstract ]
- Pieper U, Webb BM, Barkan DT, Schneidman-Duhovny D, Schlessinger A, Braberg H, Yang Z, Meng EC, Pettersen EF, Huang CC, Datta RS, Sampathkumar P, Madhusudhan MS, Sjölander K, Ferrin TE, Burley SK, Sali A. ModBase, a database of annotated comparative protein structure models, and associated resources. Nucleic Acids Res. 39 Suppl:D465-74, 2011 [ FREE Full Text ]
- Schneidman-Duhovny D, Hammel M, Sali A. Macromolecular docking restrained by a small angle X-ray scattering profile. J Struct Biol. 173:461 471, 2011 [ Abstract ]
2010
- Mashiach E, Schneidman-Duhovny D, Peri A, Shavit Y, Nussinov R, Wolfson HJ. An integrated suite of fast docking algorithms. Proteins. 78(15):3197-204, 2010. [ Abstract ]
- Schneidman-Duhovny D, Hammel M, Sali A. FoXS: a web server for rapid computation and fitting of SAXS profiles. Nucleic Acids Res. 38 Suppl:W540-4, 2010. [ FREE Full Text ]
- Lasker K, Phillips JL, Russel D, Velazquez-Muriel J, Schneidman-Duhovny D, Tjioe E, Webb B, Schlessinger A, Sali A. Integrative structure modeling of macromolecular assemblies from proteomics data. Mol Cell Proteomics. 2010.
2009
- Dror O, Schneidman-Duhovny D,Inbar Y, Nussinov R, Wolfson HJ. Novel Approach for Efficient Pharmacophore-Based Virtual Screening: Method and Applications. J Chem Inf Model. 49(10):2333-43, 2009. [ Abstract ]
- Russel D, Lasker K, Phillips J, Schneidman-Duhovny D, Velázquez-Muriel JA, Sali A. The structural dynamics of macromolecular processes. Curr Opin Cell Biol. 21(1):97-108, 2009 [ FREE Full Text ]
2008
- Dror O, Schneidman-Duhovny D, Shulman-Peleg A, Nussinov R, Wolfson HJ, Sharan R. Structural similarity of genetically interacting proteins. BMC Syst Biol. 31;2:69, 2008. [ FREE Full Text ]
- Schneidman-Duhovny D, Dror O, Inbar Y, Nussinov R, Wolfson HJ. Deterministic pharmacophore detection via multiple flexible alignment of drug-like molecules. J Comput Biol. 15:737-54, 2008. [ FREE Full Text ]
- Schneidman-Duhovny D, Dror O, Inbar Y, Nussinov R, Wolfson HJ. PharmaGist: a webserver for ligand-based pharmacophore detection. Nucleic Acids Research 2008. [Abstract ]
- Mashiach E, Schneidman-Duhovny D, Andrusier N, Nussinov R, Wolfson HJ. FireDock: a web server for fast interaction refinement in molecular docking. Nucleic Acids Res. 36:W229-32, 2008 [Abstract ]
- Julsing MK, Vasilev NP, Schneidman-Duhovny D, Muntendam R, Woerdenbag HJ, Quax WJ, Wolfson HJ, Ionkova I, Kayser O. Metabolic stereoselectivity of cytochrome P450 3A4 towards deoxypodophyllotoxin: in silico predictions and experimental validation. Eur J Med Chem. 43(6):1171-9, 2008 [Abstract ]
- Emekli U, Schneidman-Duhovny D, Wolfson HJ, Nussinov R, Haliloglu T. HingeProt: Automated Prediction of Hinges in Protein Structures. Proteins 70:1219-27, 2008. [Abstract ]
2007
- Schneidman-Duhovny D, Nussinov R, Wolfson HJ. Automatic prediction of protein interactions with large scale motion. Proteins (CAPRI issue) 69:764-773, 2007. [Abstract ]
- Miled N, Yan Y, Hon W, Perisic O, Zvelebil M, Inbar Y, Schneidman-Duhovny D, Wolfson HJ, Backer JM, Williams RL. Mechanism of two classes of cancer mutations in the phosphoinositide 3-kinase catalytic subunit. Science 317:239-242, 2007. [Abstract ]
- Inbar Y, Schneidman-Duhovny D, Dror O, Nussinov R, Wolfson HJ. Deterministic pharmacophore detection via multiple flexible alignment of drug-like molecules. In Proc. of RECOMB 2007, vol. 3692 of Lecture Notes in Computer Science, pp. 423-434. Springer Verlag.
2006 and earlier
- Schneidman-Duhovny D,Nussinov R, Wolfson HJ. Predicting molecular interactions in silico II: protein-protein and protein-drug docking. Frontiers Med. Chem. 3, 585-613, 2006.
- Schneidman-Duhovny D, Inbar Y, Nussinov R, Wolfson HJ. PatchDock and SymmDock: servers for rigid and symmetric docking. Nucleic Acids Res. 33:W363-W367, 2005. [Abstract ] [ FREE Full Text ]
- Schneidman-Duhovny D, Inbar Y, Nussinov R, Wolfson HJ. Geometry based flexible protein docking. Proteins. 60: 224-231, 2005. [Abstract ]
- Inbar Y, Schneidman-Duhovny D, Halperin I, Oron A, Nussinov R, Wolfson HJ. Approaching the CAPRI Challenge with Efficient Geometry Based Docking. Proteins 60: 217-223, 2005. [Abstract ]
- Wolfson HJ, Shatsky M, Schneidman-Duhovny D, Dror O, Shulman-Peleg A, Ma B, Nussinov R. From structure to function: methods and applications. Curr. Prot. and Peptide Sci. 6: 171-83, 2005.
- Shatsky M, Dror O, Schneidman-Duhovny D, Nussinov R, Wolfson HJ. BioInfo3D: a suite of tools for structural bioinformatics Nucl. Acids. Res. 32: W503-W507, 2004. [ Abstract ] [ FREE Full Text ]
- Gidalevitz T, Biswas C, Ding H, Schneidman-Duhovny D, Wolfson HJ, Stevens F, Radford S, Argon Y. Identification of the N-terminal peptide binding site of glucose-regulated protein 94. J Biol Chem. 279(16):16543-52, 2004. [ Abstract ] [ PDF file ]
- Schneidman-Duhovny D,Nussinov R, Wolfson HJ. Predicting molecular interactions in silico II: protein-protein and protein-drug docking. Curr. Med. Chem. 11(1): 91-107, 2004. [ Abstract ]
- Schneidman-Duhovny D, Inbar Y, Polak V, Shatsky M, Halperin I, Benyamini H, Barzilai A, Dror O, Haspel N, Nussinov R, Wolfson HJ. Taking geometry to its edge: fast unbound rigid (and hinge-bent) docking. Proteins. 52(1): 107-12, 2003. [ Abstract ] [ PDF file ]
- Duhovny D, Nussinov R, Wolfson HJ. Efficient Unbound Docking of Rigid Molecules. In Gusfield et al., Ed. Proceedings of the 2'nd Workshop on Algorithms in Bioinformatics(WABI) Rome, Italy, Lecture Notes in Computer Science 2452, pp. 185-200, Springer Verlag, 2002 [ PDF file ]