Itay Mayrose

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

The paper develops deep-learning-based scores to assess MSA quality, showing they outperform the SP score in identifying accurate alignments and improving phylogenetic reconstruction.

Context-dependent determinants of CRISPR-Cas9 editing efficiency revealed through cross-species endogenous editing analysis

The paper identifies context-dependent factors affecting CRISPR-Cas9 editing efficiency across species using endogenous editing data and shows that repair outcomes are conserved.

Evolutionary history, ecological divergence, and introgression in the Oncocyclus irises species complex in the Southern Levant

This study investigates genomic divergence, gene flow, and local adaptation in Oncocyclus irises using RAD-sequencing, finding evidence of introgression and environmental influences on genetic structure.

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

The paper examines how polyploidy affects plant-pollinator community structure by analyzing network metrics and mediating factors.

Whole-Genome Sequencing of the Wild Barley Diversity Collection: A Resource for Identifying and Exploiting Genetic Variation for Cultivated Barley Improvement

The paper sequenced wild barley to identify genetic markers linked to agronomic traits and found novel loci for stem rust resistance and days to heading.

The evolutionary dynamics that retain long neutral genomic sequences in face of indel deletion bias: a model and its application to human introns

The paper develops a model of indel dynamics incorporating border-induced selection and applies it to human intron length distribution to explain long neutral sequences.

A probabilistic model for indel evolution: differentiating insertions from deletions

This paper introduces a probabilistic model for indel evolution that distinguishes insertions from deletions, showing higher deletion rates and negative correlation with population size in empirical data.

CRISPys: Optimal sgRNA design for editing multiple members of a gene family using the CRISPR system

CRISPys is an algorithm for designing CRISPR sgRNAs that target multiple gene family members by leveraging the system's reduced specificity to simultaneously knockout homologous genes.