Nir Ben-Tal

30 papers A 1Journal 28Unranked 1
YearRankTypeTitle / Venue / Authors
2021 J jnl
PredictProtein - Predicting Protein Structure and Function for 29 Years.
Nucleic Acids Res.
Michael Bernhofer, Christian Dallago, Timothy Karl, Venkata P. Satagopam, Michael Heinzinger, Maria Littmann, Tobias Olenyi, Jiajun Qiu, Konstantin Schütze, Guy Yachdav, Haim Ashkenazy, Nir Ben-Tal, Yana Bromberg, Tatyana Goldberg, László Kaján, Seán I. O'Donoghue, Chris Sander, Andrea Schafferhans, Avner Schlessinger, Gerrit Vriend, Milot Mirdita, Piotr Gawron, Wei Gu, Yohan Jarosz, Christophe Trefois, Martin Steinegger, Reinhard Schneider, Burkhard Rost
2020 J jnl
Validity of machine learning in biology and medicine increased through collaborations across fields of expertise.
Nat. Mach. Intell.
Maria Littmann, Katharina Selig, Liel Cohen-Lavi, Yotam Frank, Peter Hönigschmid, Evans Kataka, Anja Mösch, Kun Qian, Avihai Ron, Sebastian Schmid, Adam Sorbie, Liran Szlak, Ayana Dagan-Wiener, Nir Ben-Tal, Masha Y. Niv, Daniel Razansky, Björn W. Schuller, Donna P. Ankerst, Tomer Hertz, Burkhard Rost
2019 J jnl
A natural upper bound to the accuracy of predicting protein stability changes upon mutations.
Bioinform.
Ludovica Montanucci, Pier Luigi Martelli, Nir Ben-Tal, Piero Fariselli
2019 J jnl
DDGun: an untrained method for the prediction of protein stability changes upon single and multiple point variations.
BMC Bioinform.
Ludovica Montanucci, Emidio Capriotti, Yotam Frank, Nir Ben-Tal, Piero Fariselli
2016 J jnl
ConSurf 2016: an improved methodology to estimate and visualize evolutionary conservation in macromolecules.
Nucleic Acids Res.
Haim Ashkenazy, Shiran Abadi, Eric Martz, Ofer Chay, Itay Mayrose, Tal Pupko, Nir Ben-Tal
2016 J jnl
Systems-Wide Prediction of Enzyme Promiscuity Reveals a New Underground Alternative Route for Pyridoxal 5'-Phosphate Production in
PLoS Comput. Biol.
Matthew A. Oberhardt, Raphy Zarecki, Leah Reshef, Fangfang Xia, Miquel Duran-Frigola, Rachel Schreiber, Christopher S. Henry, Nir Ben-Tal, Daniel J. Dwyer, Uri Gophna, Eytan Ruppin
2015 J jnl
DynaFace: Discrimination between Obligatory and Non-obligatory Protein-Protein Interactions Based on the Complex's Dynamics.
PLoS Comput. Biol.
Seren Soner, Pemra Ozbek, José Ignacio Garzón, Nir Ben-Tal, Turkan Haliloglu
2015 J jnl
Using ConTemplate and the PDB to explore conformational space: on the detection of rare protein conformations.
BMC Bioinform.
Aya Narunsky, Haim Ashkenazy, Rachel Kolodny, Nir Ben-Tal
2014 J jnl
ConTemplate: exploiting the protein databank to propose ensemble of conformations of a query protein of known structure.
BMC Bioinform.
Aya Narunsky, Nir Ben-Tal
2014 J jnl
PredictProtein - an open resource for online prediction of protein structural and functional features.
Nucleic Acids Res.
Guy Yachdav, Edda Kloppmann, László Kaján, Maximilian Hecht, Tatyana Goldberg, Tobias Hamp, Peter Hönigschmid, Andrea Schafferhans, Manfred Roos, Michael Bernhofer, Lothar Richter, Haim Ashkenazy, Marco Punta, Avner Schlessinger, Yana Bromberg, Reinhard Schneider, Gerrit Vriend, Chris Sander, Nir Ben-Tal, Burkhard Rost
2014 J jnl
Structure, Dynamics and Implied Gating Mechanism of a Human Cyclic Nucleotide-Gated Channel.
PLoS Comput. Biol.
Yana Gofman, Charlotta Schärfe, Debora S. Marks, Turkan Haliloglu, Nir Ben-Tal
2013 J jnl
Editorial.
Bioinform.
Nir Ben-Tal
2012 J jnl
Monte Carlo simulations of peptide-membrane interactions with the MCPep web server.
Nucleic Acids Res.
Yana Gofman, Turkan Haliloglu, Nir Ben-Tal
2012 J jnl
New Model of Cystic Fibrosis Transmembrane Conductance Regulator Proposes Active Channel-like Conformation.
J. Chem. Inf. Model.
James A. R. Dalton, Ori Kalid, Maya Schushan, Nir Ben-Tal, Jordi Villà-Freixa
2011 J jnl
Protein stability: a single recorded mutation aids in predicting the effects of other mutations in the same amino acid site.
Bioinform.
Gilad Wainreb, Lior Wolf, Haim Ashkenazy, Yves Dehouck, Nir Ben-Tal
2010 J jnl
ConSurf 2010: calculating evolutionary conservation in sequence and structure of proteins and nucleic acids.
Nucleic Acids Res.
Haim Ashkenazy, Elana Erez, Eric Martz, Tal Pupko, Nir Ben-Tal
2010 J jnl
MuD: an interactive web server for the prediction of non-neutral substitutions using protein structural data.
Nucleic Acids Res.
Gilad Wainreb, Haim Ashkenazy, Yana Bromberg, Alina Starovolsky-Shitrit, Turkan Haliloglu, Eytan Ruppin, Karen B. Avraham, Burkhard Rost, Nir Ben-Tal
2010 J jnl
Quality assessment of protein model-structures using evolutionary conservation.
Bioinform.
Matan Kalman, Nir Ben-Tal
2010 J jnl
iDBPs: a web server for the identification of DNA binding proteins.
Bioinform.
Guy Nimrod, Maya Schushan, András Szilágyi, Christina S. Leslie, Nir Ben-Tal
2009 J jnl
Study of MDM2 Binding to p53-Analogues: Affinity, Helicity, and Applicability to Drug Design.
J. Chem. Inf. Model.
Ori Kalid, Nir Ben-Tal
2009 J jnl
The ConSurf-DB: pre-calculated evolutionary conservation profiles of protein structures.
Nucleic Acids Res.
Ofir Goldenberg, Elana Erez, Guy Nimrod, Nir Ben-Tal
2008 J jnl
Cooperative Transition between Open and Closed Conformations in Potassium Channels.
PLoS Comput. Biol.
Turkan Haliloglu, Nir Ben-Tal
2007 J jnl
Co-evolving residues in membrane proteins.
Bioinform.
Angelika Fuchs, Antonio J. Martin-Galiano, Matan Kalman, Sarel Jacob Fleishman, Nir Ben-Tal, Dmitrij Frishman
2007 J jnl
Prediction and simulation of motion in pairs of transmembrane alpha-helices.
Bioinform.
Angela Enosh, Sarel Jacob Fleishman, Nir Ben-Tal, Dan Halperin
2005 J jnl
ConSurf 2005: the projection of evolutionary conservation scores of residues on protein structures.
Nucleic Acids Res.
Meytal Landau, Itay Mayrose, Yossi Rosenberg, Fabian Glaser, Eric Martz, Tal Pupko, Nir Ben-Tal
2005 J jnl
QuasiMotiFinder: protein annotation by searching for evolutionarily conserved motif-like patterns.
Nucleic Acids Res.
Roee Gutman, Carine Berezin, Roy Wollman, Yossi Rosenberg, Nir Ben-Tal
2004 — conf
Assigning transmembrane segments to helices in intermediate-resolution structures.
ISMB/ECCB (Supplement of Bioinformatics)
Angela Enosh, Sarel Jacob Fleishman, Nir Ben-Tal, Dan Halperin
2004 J jnl
ConSeq: the identification of functionally and structurally important residues in protein sequences.
Bioinform.
Carine Berezin, Fabian Glaser, Josef Rosenberg, Inbal Paz, Tal Pupko, Piero Fariselli, Rita Casadio, Nir Ben-Tal
2003 J jnl
ConSurf: Identification of Functional Regions in Proteins by Surface-Mapping of Phylogenetic Information.
Bioinform.
Fabian Glaser, Tal Pupko, Inbal Paz, Rachel E. Bell, Dalit Bechor-Shental, Eric Martz, Nir Ben-Tal
2002 A conf
Rate4Site: an algorithmic tool for the identification of functional regions in proteins by surface mapping of evolutionary determinants within their homologues.
ISMB
Tal Pupko, Rachel E. Bell, Itay Mayrose, Fabian Glaser, Nir Ben-Tal