Nir Ben-Tal

According to our database, Nir Ben-Tal authored at least 31 papers between 2002 and 2021.

Collaborative distances:

• Dijkstra number of four.
• Erdős number of three.

2021

PredictProtein - Predicting Protein Structure and Function for 29 Years.

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

Nucleic Acids Res., 2021

2020

Validity of machine learning in biology and medicine increased through collaborations across fields of expertise.

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

Nat. Mach. Intell., 2020

2019

DDGun: an untrained method for the prediction of protein stability changes upon single and multiple point variations.

Ludovica Montanucci, Emidio Capriotti, Yotam Frank, Nir Ben-Tal, Piero Fariselli

BMC Bioinform., 2019

A natural upper bound to the accuracy of predicting protein stability changes upon mutations.

Ludovica Montanucci, Pier Luigi Martelli, Nir Ben-Tal, Piero Fariselli

Bioinform., 2019

2016

Systems-Wide Prediction of Enzyme Promiscuity Reveals a New Underground Alternative Route for Pyridoxal 5'-Phosphate Production in <i>E</i>. <i>coli</i>.

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

PLoS Comput. Biol., 2016

ConSurf 2016: an improved methodology to estimate and visualize evolutionary conservation in macromolecules.

Haim Ashkenazy, Shiran Abadi, Eric Martz, Ofer Chay, Itay Mayrose, Tal Pupko, Nir Ben-Tal

Nucleic Acids Res., 2016

2015

DynaFace: Discrimination between Obligatory and Non-obligatory Protein-Protein Interactions Based on the Complex's Dynamics.

Seren Soner, Pemra Ozbek, José Ignacio Garzón, Nir Ben-Tal, Turkan Haliloglu

PLoS Comput. Biol., 2015

Using ConTemplate and the PDB to explore conformational space: on the detection of rare protein conformations.

Aya Narunsky, Haim Ashkenazy, Rachel Kolodny, Nir Ben-Tal

BMC Bioinform., 2015

2014

Structure, Dynamics and Implied Gating Mechanism of a Human Cyclic Nucleotide-Gated Channel.

Yana Gofman, Charlotta Schärfe, Debora S. Marks, Turkan Haliloglu, Nir Ben-Tal

PLoS Comput. Biol., 2014

PredictProtein - an open resource for online prediction of protein structural and functional features.

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

Nucleic Acids Res., 2014

ConTemplate: exploiting the protein databank to propose ensemble of conformations of a query protein of known structure.

Aya Narunsky, Nir Ben-Tal

BMC Bioinform., 2014

2013

Editorial.

Nir Ben-Tal

Bioinform., 2013

2012

Monte Carlo simulations of peptide-membrane interactions with the MCPep web server.

Yana Gofman, Turkan Haliloglu, Nir Ben-Tal

Nucleic Acids Res., 2012

New Model of Cystic Fibrosis Transmembrane Conductance Regulator Proposes Active Channel-like Conformation.

James A. R. Dalton, Ori Kalid, Maya Schushan, Nir Ben-Tal, Jordi Villà-Freixa

J. Chem. Inf. Model., 2012

2011

Protein stability: a single recorded mutation aids in predicting the effects of other mutations in the same amino acid site.

Gilad Wainreb, Lior Wolf, Haim Ashkenazy, Yves Dehouck, Nir Ben-Tal

Bioinform., 2011

2010

MuD: an interactive web server for the prediction of non-neutral substitutions using protein structural data.

Gilad Wainreb, Haim Ashkenazy, Yana Bromberg, Alina Starovolsky-Shitrit, Turkan Haliloglu, Eytan Ruppin, Karen B. Avraham, Burkhard Rost, Nir Ben-Tal

Nucleic Acids Res., 2010

ConSurf 2010: calculating evolutionary conservation in sequence and structure of proteins and nucleic acids.

Haim Ashkenazy, Elana Erez, Eric Martz, Tal Pupko, Nir Ben-Tal

Nucleic Acids Res., 2010

iDBPs: a web server for the identification of DNA binding proteins.

Guy Nimrod, Maya Schushan, András Szilágyi, Christina S. Leslie, Nir Ben-Tal

Bioinform., 2010

Quality assessment of protein model-structures using evolutionary conservation.

Matan Kalman, Nir Ben-Tal

Bioinform., 2010

2009

The ConSurf-DB: pre-calculated evolutionary conservation profiles of protein structures.

Ofir Goldenberg, Elana Erez, Guy Nimrod, Nir Ben-Tal

Nucleic Acids Res., 2009

Study of MDM2 Binding to p53-Analogues: Affinity, Helicity, and Applicability to Drug Design.

Ori Kalid, Nir Ben-Tal

J. Chem. Inf. Model., 2009

2008

Cooperative Transition between Open and Closed Conformations in Potassium Channels.

Turkan Haliloglu, Nir Ben-Tal

PLoS Comput. Biol., 2008

2007

Co-evolving residues in membrane proteins.

Angelika Fuchs, Antonio J. Martin-Galiano, Matan Kalman, Sarel Jacob Fleishman, Nir Ben-Tal, Dmitrij Frishman

Bioinform., 2007

Prediction and simulation of motion in pairs of transmembrane alpha-helices.

Angela Enosh, Sarel Jacob Fleishman, Nir Ben-Tal, Dan Halperin

Bioinform., 2007

2005

ConSurf 2005: the projection of evolutionary conservation scores of residues on protein structures.

Meytal Landau, Itay Mayrose, Yossi Rosenberg, Fabian Glaser, Eric Martz, Tal Pupko, Nir Ben-Tal

Nucleic Acids Res., 2005

QuasiMotiFinder: protein annotation by searching for evolutionarily conserved motif-like patterns.

Roee Gutman, Carine Berezin, Roy Wollman, Yossi Rosenberg, Nir Ben-Tal

Nucleic Acids Res., 2005

<i>In silico</i> identification of functional regions in proteins.

Guy Nimrod, Fabian Glaser, David Steinberg, Nir Ben-Tal, Tal Pupko

Proceedings of the Proceedings Thirteenth International Conference on Intelligent Systems for Molecular Biology 2005, 2005

2004

ConSeq: the identification of functionally and structurally important residues in protein sequences.

Carine Berezin, Fabian Glaser, Josef Rosenberg, Inbal Paz, Tal Pupko, Piero Fariselli, Rita Casadio, Nir Ben-Tal

Bioinform., 2004

Assigning transmembrane segments to helices in intermediate-resolution structures.

Angela Enosh, Sarel Jacob Fleishman, Nir Ben-Tal, Dan Halperin

Proceedings of the Proceedings Twelfth International Conference on Intelligent Systems for Molecular Biology/Third European Conference on Computational Biology 2004, 2004

2003

ConSurf: Identification of Functional Regions in Proteins by Surface-Mapping of Phylogenetic Information.

Fabian Glaser, Tal Pupko, Inbal Paz, Rachel E. Bell, Dalit Bechor-Shental, Eric Martz, Nir Ben-Tal

Bioinform., 2003

2002

Rate4Site: an algorithmic tool for the identification of functional regions in proteins by surface mapping of evolutionary determinants within their homologues.

Tal Pupko, Rachel E. Bell, Itay Mayrose, Fabian Glaser, Nir Ben-Tal

Proceedings of the Tenth International Conference on Intelligent Systems for Molecular Biology, 2002