B. Tidor

发表

Subsystem identification through dimensionality reduction of large-scale gene expression data.

Philip M. Kim, B. Tidor, 2003, Genome research.

Do salt bridges stabilize proteins? A continuum electrostatic analysis

B. Tidor, Z. Hendsch, 1994, Protein science : a publication of the Protein Society.

De novo determination of peptide structure with solid-state magic-angle spinning NMR spectroscopy

Tomas Lozano-Perez, B. Tidor, C. Rienstra, 2002, Proceedings of the National Academy of Sciences of the United States of America.

Side-chain repacking calculations for predicting structures and stabilities of heterodimeric coiled coils

P. S. Kim, A. Keating, B. Tidor, 2001, Proceedings of the National Academy of Sciences of the United States of America.

Novel Method for Probing the Specificity Binding Profile of Ligands: Applications to HIV Protease

B. Tidor, W. Sherman, 2008, Chemical biology & drug design.

An Analysis of Selection Procedures with Particular Attention Paid to Proportional and Boltzmann Selection

Bruce Tidor, Michael de la Maza, B. Tidor, 1993, International Conference on Genetic Algorithms.

Hidden thermodynamics of mutant proteins: a molecular dynamics analysis.

M. Karplus, B. Tidor, J. Gao, 1989, Science.

AmbiPack: A systematic algorithm for packing of macromolecular structures with ambiguous distance constraints

C. S. Wang, Tomas Lozano-Perez, B. Tidor, 1998, Proteins.

Exploiting Temporal Collateral Sensitivity in Tumor Clonal Evolution

Raja R Srinivas, D. Lauffenburger, B. Tidor, 2016, Cell.

High-resolution protein design with backbone freedom.

P. S. Kim, B. Tidor, P. Harbury, 1998, Science.

Computational design and experimental study of tighter binding peptides to an inactivated mutant of HIV‐1 protease

B. Tidor, C. Schiffer, M. Altman, 2008, Proteins.

Escherichia coli glutaminyl-tRNA synthetase is electrostatically optimized for binding of its cognate substrates.

B. Tidor, D. F. Green, 2004, Journal of molecular biology.

Rational cytokine design for increased lifetime and enhanced potency using pH-activated “histidine switching”

D. Lauffenburger, B. Tidor, K. Lowenhaupt, 2002, Nature Biotechnology.

Molecular dynamics simulations

B. Tidor, 1997, Current Biology.

Rational modification of protein stability by the mutation of charged surface residues.

B. Tidor, Z. Hendsch, D. Raleigh, 2000, Biochemistry.

Protein stabilization by removal of unsatisfied polar groups: computational approaches and experimental tests.

B Tidor, B. Tidor, R. Sauer, 1996, Biochemistry.

Simulation analysis of the stability mutant R96H of T4 lysozyme.

M Karplus, B Tidor, M. Karplus, 1991, Biochemistry.

Effects of salt bridges on protein structure and design

B Tidor, B. Tidor, Z. Hendsch, 1998, Protein science : a publication of the Protein Society.

A coarse-grained molecular model for glycosaminoglycans: application to chondroitin, chondroitin sulfate, and hyaluronic acid.

Mark Bathe, Bruce Tidor, Gregory C Rutledge, 2005, Biophysical journal.

The remarkably invariant interaction energies of lithium first‐row compounds with water and with ammonia

B. Tidor, P. Schleyer, Elmar Kaufmann, 1986 .

Rational Approaches to Improving Selectivity in Drug Design

B. Tidor, W. Sherman, D. Huggins, 2012, Journal of medicinal chemistry.

A Post-Synaptic Scaffold at the Origin of the Animal Kingdom

Todd H. Oakley, B. Tidor, B. Degnan, 2007, PloS one.

Selecting high-confidence predictions from ordinary differential equation models of biological networks

B. Tidor, C. Bever, 2008 .

Combining metabolic and protein engineering of a terpenoid biosynthetic pathway for overproduction and selectivity control

Kelly M. Thayer, P. K. Ajikumar, Kristala L. J. Prather, 2010, Proceedings of the National Academy of Sciences.

Efficient Computation of Small-Molecule Configurational Binding Entropy and Free Energy Changes by Ensemble Enumeration

Bracken M. King, B. Tidor, C. Schiffer, 2013, Journal of chemical theory and computation.

Efficient calculation of molecular configurational entropies using an information theoretic approximation.

Bruce Tidor, Bracken M. King, B. Tidor, 2012, The journal of physical chemistry. B.

Simulated annealing on free energy surfaces by a combined molecular dynamics and Monte Carlo approach

Bruce Tidor, B. Tidor, 1993 .

Systematic placement of structural water molecules for improved scoring of protein-ligand interactions.

Bruce Tidor, David J Huggins, B. Tidor, 2011, Protein engineering, design & selection : PEDS.

Synergistic drug-cytokine induction of hepatocellular death as an in vitro approach for the study of inflammation-associated idiosyncratic drug hepatotoxicity.

Bracken M. King, D. Lauffenburger, P. Sorger, 2009, Toxicology and applied pharmacology.

A Curved Panel Integration Technique for Molecular Surfaces

Jacob K. White, Jaydeep P. Bardhan, Bruce Tidor, 2005 .

Computation of electrostatic complements to proteins: A case of charge stabilized binding

B Tidor, B. Tidor, L. Chong, 1998, Protein science : a publication of the Protein Society.

Rational design of new binding specificity by simultaneous mutagenesis of calmodulin and a target peptide.

Bruce Tidor, Alan Jasanoff, B. Tidor, 2006, Biochemistry.

Design of improved protein inhibitors of HIV‐1 cell entry: Optimization of electrostatic interactions at the binding interface

Bruce Tidor, B. Tidor, D. F. Green, 2005, Proteins.

Optimal charges in lead progression: a structure-based neuraminidase case study.

Bruce Tidor, Alan C Cheng, B. Tidor, 2006, Journal of medicinal chemistry.

Chapter 1. Computational Prototyping Computational Prototyping Group

A. Megretski, J. Peraire, B. Tidor, 2022 .

Cellular level models as tools for cytokine design

Mala L. Radhakrishnan, B. Tidor, 2010, Biotechnology progress.

Surface salt bridges, double-mutant cycles, and protein stability: an experimental and computational analysis of the interaction of the Asp 23 side chain with the N-terminus of the N-terminal domain of the ribosomal protein l9.

B. Tidor, C. Snow, Z. Hendsch, 2003, Biochemistry.

Optimal linearized Poisson-Boltzmann theory applied to the simulation of flexible polyelectrolytes in solution.

B Tidor, B. Tidor, A. Grodzinsky, 2004, The Journal of chemical physics.

Boltzmann Weighted Selection Improves Performance of N 00014-85-K-0124 Genetic Algorithms

B. Tidor, Maza, Michael, 2022 .

MODELING ENZYMATIC REGULATION IN METABOLIC NETWORKS

C. D. Machado, B. Tidor, E. Ferreira, 2011 .

X‐ray structural and simulation analysis of a protein mutant: The value of a combined approach

M. Karplus, B. Tidor, C. Mattos, 2004, Proteins.

DELINEATION OF LPS-BINDING SITES ON HEMOGLOBIN – FROM IN SILICO PREDICTIONS TO BIOPHYSICAL CHARACTERIZATION

B. Tidor, L. Tucker-Kellogg, B. Ho, 2011 .

Substrate envelope-designed potent HIV-1 protease inhibitors to avoid drug resistance.

Hong Cao, Bruce Tidor, Nese Kurt Yilmaz, 2013, Chemistry & biology.

Evaluating the Substrate-Envelope Hypothesis: Structural Analysis of Novel HIV-1 Protease Inhibitors Designed To Be Robust against Drug Resistance

Michael K. Gilson, Hong Cao, Bruce Tidor, 2010, Journal of Virology.

Arginine-mediated RNA recognition: the arginine fork

B Tidor, B. Tidor, D. Hudson, 1991, Science.

Lithium-stabilized methanonium ions, CLi5-nHn+. A theoretical study

B. Tidor, J. Chandrasekhar, B. Luke, 1983 .

Structural model for the β-amyloid fibril based on interstrand alignment of an antiparallel-sheet comprising a C-terminal peptide

Eric J. Simon, Bruce Tidor, Peter T. Lansbury, 1995, Nature Structural Biology.

Exploring the gap between dynamic and constraint-based models of metabolism.

Isabel Rocha, Bruce Tidor, Daniel Machado, 2012, Metabolic engineering.

Exploring the gap between dynamic and steady-state models of metabolism

Rafael S. Costa, C. D. Machado, B. Tidor, 2010 .

Convergence in parameters and predictions using computational experimental design

Jacob K. White, Bruce Tidor, David R. Hagen, 2013, Interface Focus.

Simulating EGFR-ERK Signaling Control by Scaffold Proteins KSR and MP1 Reveals Differential Ligand-Sensitivity Co-Regulated by Cbl-CIN85 and Endophilin

Lisa Tucker-Kellogg, Boon Chuan Low, Bruce Tidor, 2011, PloS one.

An Integrated Mathematical Model of Thrombin-, Histamine-and VEGF-Mediated Signalling in Endothelial Permeability

XiaoNa Wei, Bu-Cong Han, Jing-Xian Zhang, 2011, BMC Systems Biology.

Reply to Comment on "Sloppy models, parameter uncertainty, and the role of experimental design"

Bruce Tidor, Joshua F Apgar, David K Witmer, 2011, Molecular bioSystems.

Sloppy models, parameter uncertainty, and the role of experimental design.

Bruce Tidor, Joshua F Apgar, David K Witmer, 2010, Molecular bioSystems.

Modeling formalisms in Systems Biology

Miguel Rocha, Isabel Rocha, Rafael S. Costa, 2011, AMB Express.

Solvent effect on the anomeric equilibrium in D-glucose: a free energy simulation analysis

Bruce Tidor, Jiali Gao, Martin Karplus, 1991 .

Optimizing electrostatic affinity in ligand-receptor binding: Theory, computation, and ligand properties

Bruce Tidor, B. Tidor, Erik Kangas, 1998 .

CHARMM: The biomolecular simulation program

Jianpeng Ma, Charles L. Brooks, Themis Lazaridis, 2009, J. Comput. Chem..

Symmetric signaling by an asymmetric 1 erythropoietin: 2 erythropoietin receptor complex.

Mala L. Radhakrishnan, B. Tidor, H. Lodish, 2009, Molecular cell.

Dynamics of DNA oligomers.

M Karplus, B Tidor, M. Karplus, 1983, Journal of biomolecular structure & dynamics.

Selection of horseradish peroxidase variants with enhanced enantioselectivity by yeast surface display.

B. Tidor, A. Klibanov, K. Wittrup, 2007, Chemistry & biology.

Strong Enrichment of Aromatic Residues in Binding Sites from a Charge-neutralized Hyperthermostable Sso7d Scaffold Library*

Raja R Srinivas, B. Tidor, K. Wittrup, 2016, The Journal of Biological Chemistry.

Modeling Stem Cell Induction Processes

B. Tidor, J. Cabral, F. Grácio, 2013, PloS one.

The structure and stability of dications derived from methane

B. Tidor, J. Pople, P. Schleyer, 1982 .

Modeling Stem Cell Induction Processes Citation

B. Tidor, J. Cabral, F. Grácio, 2013 .

Computationally Mapping Sequence Space To Understand Evolutionary Protein Engineering

Bruce Tidor, B. Tidor, Kathryn A Armstrong, 2008, Biotechnology progress.

Inelastic neutron scattering analysis of low-frequency motions in proteins : harmonic and damped harmonic models of bovine pancreatic tryspin inhibitor

Bruce Tidor, Martin Karplus, Jeremy C. Smith, 1990 .

MIST: Maximum Information Spanning Trees for dimension reduction of biological data sets

Bruce Tidor, Bracken M. King, B. Tidor, 2009, Bioinform..

Distinct mechanisms act in concert to mediate cell cycle arrest

Bruce Tidor, Michael B Yaffe, Jared E Toettcher, 2009, Proceedings of the National Academy of Sciences.

Testing the Substrate-Envelope Hypothesis with Designed Pairs of Compounds

Hong Cao, Bruce Tidor, Celia A. Schiffer, 2013, ACS chemical biology.

Computational design of antibody-affinity improvement beyond in vivo maturation

Bruce Tidor, Shaun M Lippow, B. Tidor, 2007, Nature Biotechnology.

Increased Flexibility in Genetic Algorithms: the Use of variable Boltzmann Selective pressure to control Propagation

Bruce Tidor, Michael de la Maza, B. Tidor, 1992, Computer Science and Operations Research.

A "Reverse-Schur" Approach to Optimization With Linear PDE Constraints: Application to Biomolecule Analysis and Design.

Jacob K. White, Jaydeep P Bardhan, Jacob K White, 2009, Journal of chemical theory and computation.

Substantial energetic improvement with minimal structural perturbation in a high affinity mutant antibody.

B Tidor, B. Tidor, H. H. Hernández, 2004, Journal of molecular biology.

Modelling the impact of nucleolin expression level on the activity of F3 peptide-targeted pH-sensitive pegylated liposomes containing doxorubicin

B. Tidor, S. Simões, J. Ramalho, 2021, Drug Delivery and Translational Research.

Combined Model of Intrinsic and Extrinsic Variability for Computational Network Design with Application to Synthetic Biology

Bruce Tidor, Tina Toni, B. Tidor, 2013, PLoS Comput. Biol..

Stimulus Design for Model Selection and Validation in Cell Signaling

Drew Endy, Forest M. White, Bruce Tidor, 2008, PLoS Comput. Biol..

Biological network design strategies: discovery through dynamic optimization.

Bruce Tidor, P. I. Barton, Bambang S Adiwijaya, 2006, Molecular bioSystems.

The contribution of cross‐links to protein stability: A normal mode analysis of the configurational entropy of the native state

M Karplus, B Tidor, M. Karplus, 1993, Proteins.

Aglycosylated immunoglobulin G1 variants productively engage activating Fc receptors

Bruce Tidor, Stephen L. Sazinsky, B. Tidor, 2008, Proceedings of the National Academy of Sciences.

Quantitative methods for developing Fc mutants with extended half-lives.

Bruce Tidor, Daniel T Kamei, Douglas A Lauffenburger, 2005, Biotechnology and bioengineering.

Osmotic pressure of aqueous chondroitin sulfate solution: a molecular modeling investigation.

B. Tidor, A. Grodzinsky, M. Bathe, 2005, Biophysical journal.

Delineation of Lipopolysaccharide (LPS)-binding Sites on Hemoglobin

J. L. Ding, B. Tidor, L. Tucker-Kellogg, 2011, The Journal of Biological Chemistry.

Multilevel modeling and value of information in clinical trial decision support

Bruce Tidor, Brendan Murphy, Paul M Coates, 2014, BMC Systems Biology.

Simulation analysis of the stability mutants R96H of bacteriophage T4 lysozyme and I96A of barnase.

M. Karplus, S. Wodak, B. Tidor, 1991, Ciba Foundation symposium.

Helix‐capping interaction in λ cro protein: A free energy simulation analysis

B. Tidor, 1994 .

The contribution of vibrational entropy to molecular association. The dimerization of insulin.

M Karplus, B Tidor, M. Karplus, 1994, Journal of molecular biology.

Inelastic neutron scattering analysis of picosecond internal protein dynamics. Comparison of harmonic theory with experiment.

S Cusack, M Karplus, B Tidor, 1988, Journal of molecular biology.

Machine Learning Identifies Chemical Characteristics That Promote Enzyme Catalysis

Bruce Tidor, Brian M. Bonk, Brian M Bonk, 2019, Journal of the American Chemical Society.

Robust against Drug Resistance HIV-1 Protease Inhibitors Designed To Be Hypothesis: Structural Analysis of Novel Evaluating the Substrate-Envelope

B. Tidor, M. Gilson, C. Schiffer, 2014 .

A computational method for the analysis and prediction of protein:phosphopeptide‐binding sites

Bruce Tidor, Michael B Yaffe, Brian A Joughin, 2005, Protein science : a publication of the Protein Society.

Proteomic Identification of 14-3-3ζ as a Mitogen-Activated Protein Kinase-Activated Protein Kinase 2 Substrate: Role in Dimer Formation and Ligand Binding

Bruce Tidor, Michael B. Yaffe, David W. Powell, 2003, Molecular and Cellular Biology.

A Fungal-Selective Cytochrome bc1 Inhibitor Impairs Virulence and Prevents the Evolution of Drug Resistance.

Raja R Srinivas, S. Buchwald, B. Tidor, 2016, Cell chemical biology.

Action‐at‐a‐distance interactions enhance protein binding affinity

Bruce Tidor, Brian A Joughin, Brian A. Joughin, 2005, Protein science : a publication of the Protein Society.

A Coarse-Grained Molecular Model for Glycosaminoglycans : Application to Chondroitin , Chondroitin Sulfate , and Hyaluronic Acid Citation

B. Tidor, A. Grodzinsky, M. Bathe, 2008 .

Contribution of the hydrophobic effect to protein stability: analysis based on simulations of the Ile-96----Ala mutation in barnase.

S J Wodak, M Karplus, B Tidor, 1991, Proceedings of the National Academy of Sciences of the United States of America.

Sensitivity Analysis for Oscillating Dynamical Systems

Jacob K. White, Paul I. Barton, Bruce Tidor, 2009, SIAM J. Sci. Comput..

Barstar is electrostatically optimized for tight binding to barnase

Bruce Tidor, B. Tidor, L. Lee, 2001, Nature Structural Biology.

Evaluation of an inverse molecular design algorithm in a model binding site

Bruce Tidor, David J Huggins, Michael D Altman, 2009, Proteins.

Efficient Bayesian estimates for discrimination among topologically different systems biology models.

Bruce Tidor, David R Hagen, B. Tidor, 2014, Molecular bioSystems.

Defining Cdk5 ligand chemical space with small molecule inhibitors of tau phosphorylation.

Andrea Musacchio, Bruce Tidor, Mala L Radhakrishnan, 2005, Chemistry & biology.

Computational Prototyping Tools and Techniques

J. Peraire, B. Tidor, 2005 .

Molecular-modeling calculations of enzymatic enantioselectivity taking hydration into account.

B. Tidor, A. Klibanov, T. Ke, 1998, Biotechnology and bioengineering.

Numerical integration techniques for curved-element discretizations of molecule-solvent interfaces.

Jacob K. White, Bruce Tidor, Jaydeep P Bardhan, 2007, The Journal of chemical physics.

Optimal Drug Cocktail Design: Methods for Targeting Molecular Ensembles and Insights from Theoretical Model Systems

Bruce Tidor, Mala L. Radhakrishnan, B. Tidor, 2008, J. Chem. Inf. Model..

FFTSVD: A Fast Multiscale Boundary-Element Method Solver Suitable for Bio-MEMS and Biomolecule Simulation

Jacob K. White, Jaydeep P. Bardhan, Bruce Tidor, 2006, IEEE Transactions on Computer-Aided Design of Integrated Circuits and Systems.

Design of Mutation‐resistant HIV Protease Inhibitors with the Substrate Envelope Hypothesis

Hong Cao, Bruce Tidor, Michael K Gilson, 2007, Chemical biology & drug design.

Progress in computational protein design.

Bruce Tidor, Shaun M Lippow, B. Tidor, 2007, Current opinion in biotechnology.

Probing the roles of residues at the e and g positions of the GCN4 leucine zipper by combinatorial mutagenesis

James C. Hu, Bruce Tidor, B. Tidor, 1993, Protein science : a publication of the Protein Society.

Molecular mechanisms and design principles for promiscuous inhibitors to avoid drug resistance: Lessons learned from HIV‐1 protease inhibition

Bruce Tidor, Mala L Radhakrishnan, Mala L. Radhakrishnan, 2015, Proteins.

Efficient optimization of electrostatic interactions between biomolecules

Jacob K. White, Jaydeep P. Bardhan, Bruce Tidor, 2007, 2007 46th IEEE Conference on Decision and Control.

An Accurate Surface Formulation for Biomolecule Electrostatics in Non-Ionic Solutions

B. Tidor, M. Altman, J. Bardhan, 2005, 2005 IEEE Engineering in Medicine and Biology 27th Annual Conference.

A meshless, spectrally accurate, integral equation solver for molecular surface electrostatics

Jacob K. White, Bruce Tidor, Shih-Hsien Kuo, 2008, JETC.

Evaluation of Electrostatic Interactions

B. Tidor, D. F. Green, 2003, Current protocols in bioinformatics.

Fast methods for simulation of biomolecule electrostatics

Jacob K. White, Jaydeep P. Bardhan, Bruce Tidor, 2002, IEEE/ACM International Conference on Computer Aided Design, 2002. ICCAD 2002..

Transition from B to Z DNA: contribution of internal fluctuations to the configurational entropy difference.

M Karplus, B Tidor, M. Karplus, 1985, Science.

Design, synthesis, and biological and structural evaluations of novel HIV-1 protease inhibitors to combat drug resistance.

B. Tidor, C. Schiffer, T. Rana, 2012, Journal of medicinal chemistry.

Optimization of binding electrostatics: Charge complementarity in the barnase‐barstar protein complex

Bruce Tidor, B. Tidor, L. Lee, 2001, Protein science : a publication of the Protein Society.

Electrostatic Complementarity at Ligand Binding Sites: Application to Chorismate Mutase

Bruce Tidor, B. Tidor, and Erik Kangas, 2001 .

Entropy of Two-Molecule Correlated Translational-Rotational Motions Using the kth Nearest Neighbor Method.

B. Tidor, F. Fogolari, G. Esposito, 2021, Journal of chemical theory and computation.

Preferential heterodimer formation via undercompensated electrostatic interactions.

B Tidor, B. Tidor, R. Sauer, 2001, Journal of the American Chemical Society.

Altering dimerization specificity by changes in surface electrostatics

B Tidor, B. Tidor, R. Sauer, 2001, Proceedings of the National Academy of Sciences of the United States of America.

Accurate solution of multi‐region continuum biomolecule electrostatic problems using the linearized Poisson–Boltzmann equation with curved boundary elements

Jacob K. White, Jaydeep P. Bardhan, Bruce Tidor, 2009, J. Comput. Chem..

HIV-1 protease inhibitors from inverse design in the substrate envelope exhibit subnanomolar binding to drug-resistant variants.

Hong Cao, Bruce Tidor, Michael K Gilson, 2008, Journal of the American Chemical Society.

Rational design of thiolase substrate specificity for metabolic engineering applications

Brian M. Bonk, B. Tidor, Yekaterina Tarasova, 2018, Biotechnology and bioengineering.

Repacking protein cores with backbone freedom: structure prediction for coiled coils.

P S Kim, B Tidor, P. S. Kim, 1995, Proceedings of the National Academy of Sciences of the United States of America.

Electrostatic interactions in the GCN4 leucine zipper: Substantial contributions arise from intramolecular interactions enhanced on binding

Bruce Tidor, B. Tidor, Z. Hendsch, 1999, Protein science : a publication of the Protein Society.

Model Transformation of Metabolic Networks using a Petri Net Based Framework

Miguel Rocha, Eugénio C. Ferreira, Isabel Rocha, 2010, ACSD/Petri Nets Workshops.

NOVEL MODELING FORMALISMS AND SIMULATION TOOLS IN COMPUTATIONAL BIOSYSTEMS

C. D. Machado, B. Tidor, D. Machado, 2010 .

Expression of N-formylated proteins in Escherichia coli.

B. Tidor, T. Baker, R. Sauer, 2003, Protein expression and purification.

The Per2 Negative Feedback Loop Sets the Period in the Mammalian Circadian Clock Mechanism

Paul I. Barton, Bruce Tidor, A. Katharina Wilkins, 2007, PLoS Comput. Biol..

Long-Range Electrostatic Contributions to Protein-Ligand Binding Estimated Using Protein Charge Ladders, Affinity Capillary Electrophoresis, and Continuum Electrostatic Theory

George M. Whitesides, Bruce Tidor, David C. Duffy, 1999 .

Free energy of sickling: A simulation analysis.

M Karplus, B Tidor, M. Karplus, 1990, Proceedings of the National Academy of Sciences of the United States of America.

Additivity in the analysis and design of HIV protease inhibitors.

Bruce Tidor, Michael K Gilson, Akbar Ali, 2009, Journal of medicinal chemistry.

A Critical Review on Modelling Formalisms and Simulation Tools in Computational Biosystems

Miguel Rocha, Eugénio C. Ferreira, Isabel Rocha, 2009, IWANN.

Charge Optimization Theory for Induced-Fit Ligands

B. Tidor, M. Gilson, Yang Shen, 2012, Journal of chemical theory and computation.

Charge Optimization Theory for Induced-Fit Ligands Citation

B. Tidor, M. Gilson, Yang Shen, 2012 .

Limitations of quantitative gene regulation models: a case study.

Bruce Tidor, Philip M. Kim, Philip M Kim, 2003, Genome research.

Dynamics of tRNA: Experimental Neutron Spectra Compared with a Normal Mode Analysis

Jeremy C. Smith, M. Karplus, B. Tidor, 1994 .

MIST: Maximum Information Spanning Trees for dimension reduction of biological data sets

Bracken M. King, B. Tidor, 2009, Bioinform..

Novel Method for Probing the Specificity Binding Profile of Ligands: Applications to HIV Protease

B. Tidor, W. Sherman, 2008, Chemical biology & drug design.

TGFβRII: TGF-β type II receptor (vertebrates)

B. Tidor, Herbert Y. Lin, 1995 .

Towards a multi-scale model of cartilage: coarse-graining glycosaminoglycans

B. Tidor, A. Grodzinsky, M. Bathe, 2003 .

BIOMECHANICS OF AGGRECAN IN CARTILAGE : CONNECTING MOLECULAR COMPOSITION WITH MACROSCOPIC MECHANICAL PROPERTIES

B. Tidor, A. Grodzinsky, M. Bathe, 2002 .

Symmetric signaling by an asymmetric 1 erythropoietin: 2 erythropoietin receptor complex.

Mala L. Radhakrishnan, B. Tidor, H. Lodish, 2009, Molecular cell.

Electrostatic specificity in molecular ligand design

Bruce Tidor, B. Tidor, Erik Kangas, 2000 .

Exploring the gap between dynamic and constraint-based models of metabolism.

Rafael S. Costa, B. Tidor, D. Machado, 2012, Metabolic engineering.

Fast Methods for Biomolecule Charge Optimization

S. S. Kuo, B. Tidor, M. Altman, 2002 .

Electrostatic Optimization in Ligand Complementarity and Design

Bruce Tidor, B. Tidor, Erik Kangas, 2000 .

Optimization of electrostatic binding free energy

Bruce Tidor, B. Tidor, L. Lee, 1997 .

Specificity in molecular design: a physical framework for probing the determinants of binding specificity and promiscuity in a biological environment.

Bruce Tidor, Mala L Radhakrishnan, Mala L. Radhakrishnan, 2007, The journal of physical chemistry. B.

Computational design of antibody-affinity improvement beyond in vivo maturation

B. Tidor, K. Wittrup, S. Lippow, 2007, Nature Biotechnology.

Intramolecular Hydrogen Bonding Restricts Gd-Aqua-Ligand Dynamics.

Raja R Srinivas, B. Tidor, J. Niklas, 2017, Angewandte Chemie.