Tal Pupko

Tel Aviv, TA, Israel

Last Updated: 09/26/2026

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Found 92 publications

Identification of protein secretion systems and type III effectors in wood-associated bacteria of the genus Xylophilus.

Identification of protein secretion systems and type III effectors in wood-associated bacteria of the genus Xylophilus.

Journal: Microbiology spectrum

Published: July 06, 2026

BetaDescribe: Providing rich descriptions from protein sequences.

BetaDescribe: Providing rich descriptions from protein sequences.

Journal: Proceedings of the National Academy of Sciences of the United States of America

Published: June 29, 2026

A deep-learning-based score to evaluate multiple sequence alignments.

A deep-learning-based score to evaluate multiple sequence alignments.

Journal: Molecular biology and evolution

Published: January 29, 2026

The role of plant polyploidy in the structure of plant-pollinator communities.

The role of plant polyploidy in the structure of plant-pollinator communities.

Journal: Frontiers in plant science

Published: July 30, 2025

Efficient algorithms for simulating sequences along a phylogenetic tree.

Efficient algorithms for simulating sequences along a phylogenetic tree.

Journal: Bioinformatics (Oxford, England)

Published: May 06, 2025

M1CR0B1AL1Z3R 2.0: an enhanced web server for comparative analysis of bacterial genomes at scale.

M1CR0B1AL1Z3R 2.0: an enhanced web server for comparative analysis of bacterial genomes at scale.

Journal: Nucleic acids research

Published: March 17, 2025

Effectidor II: a pan-genomic AI-based algorithm for the prediction of type III secretion system effectors.

Effectidor II: a pan-genomic AI-based algorithm for the prediction of type III secretion system effectors.

Journal: Bioinformatics (Oxford, England)

Published: November 11, 2024

Phylogenetic Analysis of 590 Species Reveals Distinct Evolutionary Patterns of Intron-Exon Gene Structures Across Eukaryotic Lineages.

Phylogenetic Analysis of 590 Species Reveals Distinct Evolutionary Patterns of Intron-Exon Gene Structures Across Eukaryotic Lineages.

Journal: Molecular biology and evolution

Published: September 27, 2024

Evolutionary Insights from the Mitochondrial Genome of Oikopleura dioica: Sequencing Challenges, RNA Editing, Gene Transfers to the Nucleus, and tRNA Loss.

Evolutionary Insights from the Mitochondrial Genome of Oikopleura dioica: Sequencing Challenges, RNA Editing, Gene Transfers to the Nucleus, and tRNA Loss.

Journal: Genome biology and evolution

Published: August 13, 2024

A machine-learning-based alternative to phylogenetic bootstrap.

A machine-learning-based alternative to phylogenetic bootstrap.

Journal: Bioinformatics (Oxford, England)

Published: June 28, 2024

BetaAlign: a deep learning approach for multiple sequence alignment.

BetaAlign: a deep learning approach for multiple sequence alignment.

Journal: Bioinformatics (Oxford, England)

Published: June 20, 2024

Insertions and Deletions: Computational Methods, Evolutionary Dynamics, and Biological Applications.

Insertions and Deletions: Computational Methods, Evolutionary Dynamics, and Biological Applications.

Journal: Molecular biology and evolution

Published: April 10, 2024

Showing 1-12 of 92

Last Updated: 09/26/2026