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Tal Pupko
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2020 – today
- 2024
- [j29]Elya Wygoda, Gil Loewenthal, Asher Moshe, Michael Alburquerque, Itay Mayrose, Tal Pupko
:
Statistical framework to determine indel-length distribution. Bioinform. 40(2) (2024) - [j28]Edo Dotan, Gal Jaschek, Tal Pupko
Effect of tokenization on transformers for biological sequences. Bioinform. 40(4) (2024) - 2023
- [j27]Edo Dotan, Michael Alburquerque, Elya Wygoda, Dorothée Huchon
GenomeFLTR: filtering reads made easy. Nucleic Acids Res. 51(W1): 232-236 (2023) - [c7]Edo Dotan, Yonatan Belinkov, Oren Avram, Elya Wygoda, Noa Ecker, Michael Alburquerque, Omri Keren, Gil Loewenthal, Tal Pupko:
Multiple sequence alignment as a sequence-to-sequence learning problem. ICLR 2023 - [i1]Dana Azouri, Oz Granit, Michael Alburquerque, Yishay Mansour, Tal Pupko, Itay Mayrose:
The tree reconstruction game: phylogenetic reconstruction using reinforcement learning. CoRR abs/2303.06695 (2023) - 2022
- [j26]Naama Wagner, Oren Avram
Effectidor: an automated machine-learning-based web server for the prediction of type-III secretion system effectors. Bioinform. 38(8): 2341-2343 (2022) - 2021
- [j25]Oren Avram
PASA: Proteomic analysis of serum antibodies web server. PLoS Comput. Biol. 17(1) (2021)
2010 – 2019
- 2019
- [j24]Asher Moshe, Tal Pupko
Ancestral sequence reconstruction: accounting for structural information by averaging over replacement matrices. Bioinform. 35(15): 2562-2568 (2019) - [j23]Oren Avram
M1CR0B1AL1Z3R - a user-friendly web server for the analysis of large-scale microbial genomics data. Nucleic Acids Res. 47(Webserver-Issue): W88-W92 (2019) - 2017
- [j22]Eli Levy Karin
TraitRateProp: a web server for the detection of trait-dependent evolutionary rate shifts in sequence sites. Nucleic Acids Res. 45(Webserver-Issue): W260-W264 (2017) - [j21]Haim Ashkenazy
SpartaABC: a web server to simulate sequences with indel parameters inferred using an approximate Bayesian computation algorithm. Nucleic Acids Res. 45(Webserver-Issue): W453-W457 (2017) - 2016
- [j20]Haim Ashkenazy
ConSurf 2016: an improved methodology to estimate and visualize evolutionary conservation in macromolecules. Nucleic Acids Res. 44(Webserver-Issue): W344-W350 (2016) - 2015
- [j19]Itamar Sela, Haim Ashkenazy
GUIDANCE2: accurate detection of unreliable alignment regions accounting for the uncertainty of multiple parameters. Nucleic Acids Res. 43(Webserver-Issue): W7-W14 (2015) - 2013
- [j18]Ofir Cohen, Haim Ashkenazy
CoPAP: Coevolution of Presence-Absence Patterns. Nucleic Acids Res. 41(Webserver-Issue): 232-237 (2013) - 2012
- [j17]Ofir Cohen, Haim Ashkenazy
Uncovering the co-evolutionary network among prokaryotic genes. Bioinform. 28(18): 389-394 (2012) - [j16]Haim Ashkenazy
FastML: a web server for probabilistic reconstruction of ancestral sequences. Nucleic Acids Res. 40(Web-Server-Issue): 580-584 (2012) - 2010
- [j15]Ofir Cohen, Haim Ashkenazy
GLOOME: gain loss mapping engine. Bioinform. 26(22): 2914-2915 (2010) - [j14]Osnat Penn, Eyal Privman, Haim Ashkenazy
GUIDANCE: a web server for assessing alignment confidence scores. Nucleic Acids Res. 38(Web-Server-Issue): 23-28 (2010) - [j13]Haim Ashkenazy
ConSurf 2010: calculating evolutionary conservation in sequence and structure of proteins and nucleic acids. Nucleic Acids Res. 38(Web-Server-Issue): 529-533 (2010)
2000 – 2009
- 2009
- [j12]Nimrod D. Rubinstein, Itay Mayrose
Epitopia: a web-server for predicting B-cell epitopes. BMC Bioinform. 10: 287 (2009) - 2008
- [j11]Osnat Penn, Adi Stern, Nimrod D. Rubinstein, Julien Dutheil
Evolutionary Modeling of Rate Shifts Reveals Specificity Determinants in HIV-1 Subtypes. PLoS Comput. Biol. 4(11) (2008) - 2007
- [j10]Matan Ninio, Eyal Privman, Tal Pupko
Phylogeny reconstruction: increasing the accuracy of pairwise distance estimation using Bayesian inference of evolutionary rates. Bioinform. 23(2): 136-141 (2007) - [j9]Itay Mayrose, Osnat Penn, Elana Erez, Nimrod D. Rubinstein, Tomer Shlomi, Natalia Tarnovitski Freund, Erez M. Bublil, Eytan Ruppin, Roded Sharan, Jonathan M. Gershoni, Eric Martz
Pepitope: epitope mapping from affinity-selected peptides. Bioinform. 23(23): 3244-3246 (2007) - [j8]Adi Stern, Adi Doron-Faigenboim, Elana Erez, Eric Martz
Selecton 2007: advanced models for detecting positive and purifying selection using a Bayesian inference approach. Nucleic Acids Res. 35(Web-Server-Issue): 506-511 (2007) - [c6]Itay Mayrose, Adi Doron-Faigenboim, Eran Bacharach
Towards realistic codon models: among site variability and dependency of synonymous and non-synonymous rates. ISMB/ECCB (Supplement of Bioinformatics) 2007: 319-327 - 2005
- [j7]Adi Doron-Faigenboim, Adi Stern, Itay Mayrose, Eran Bacharach
Selecton: a server for detecting evolutionary forces at a single amino-acid site. Bioinform. 21(9): 2101-2103 (2005) - [j6]Meytal Landau
ConSurf 2005: the projection of evolutionary conservation scores of residues on protein structures. Nucleic Acids Res. 33(Web-Server-Issue): 299-302 (2005) - [c5]Itay Mayrose, Nir Friedman
A Gamma mixture model better accounts for among site rate heterogeneity. ECCB/JBI 2005: 158 - [c4]Guy Nimrod, Fabian Glaser, David Steinberg, Nir Ben-Tal
In silico identification of functional regions in proteins. ISMB (Supplement of Bioinformatics) 2005: 328-337 - 2004
- [j5]Carine Berezin, Fabian Glaser, Josef Rosenberg, Inbal Paz, Tal Pupko
ConSeq: the identification of functionally and structurally important residues in protein sequences. Bioinform. 20(8): 1322-1324 (2004) - [j4]Itsik Pe'er, Tal Pupko
Incomplete Directed Perfect Phylogeny. SIAM J. Comput. 33(3): 590-607 (2004) - 2003
- [j3]Fabian Glaser, Tal Pupko
ConSurf: Identification of Functional Regions in Proteins by Surface-Mapping of Phylogenetic Information. Bioinform. 19(1): 163-164 (2003) - 2002
- [j2]Tal Pupko
A branch-and-bound algorithm for the inference of ancestral amino-acid sequences when the replacement rate varies among sites: Application to the evolution of five gene families. Bioinform. 18(8): 1116-1123 (2002) - [j1]Nir Friedman
A Structural EM Algorithm for Phylogenetic Inference. J. Comput. Biol. 9(2): 331-353 (2002) - [c3]Tal Pupko, Rachel E. Bell, Itay Mayrose, Fabian Glaser, Nir Ben-Tal:
Rate4Site: an algorithmic tool for the identification of functional regions in proteins by surface mapping of evolutionary determinants within their homologues. ISMB 2002: 71-77 - 2001
- [c2]Nir Friedman
A structural EM algorithm for phylogenetic inference. RECOMB 2001: 132-140 - [c1]Tal Pupko
A Chemical-Distance-Based Test for Positive Darwinian Selection. WABI 2001: 142-155
Coauthor Index
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last updated on 2024-07-25 20:20 CEST by the dblp team
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