Yitzhak Pilpel

The paper identifies the syntax of SECReTE, a secretion-enhancing cis regulatory element, through a parallel reporter screen in mammalian cells, revealing key sequence patterns and their impact on mRNA localization and protein secretion.

This study investigates the evolution of gene regulation in trypanosomatids, showing a shift from gene-specific regulation to architecture-encoded regulation through polycistronic transcription units.

The paper identifies an information content principle that links regulatory demands, expression specificity, and gene age across human tissues.

This study examines how HCMV and SARS-CoV-2 affect the human tRNA pool and finds HCMV alters tRNA expression and modifications, while SARS-CoV-2 does not, with implications for viral codon usage and host-virus interactions.

The paper analyzes intra-species genetic diversity of gut bacteria across individuals and links strain-level variations to host physiological traits.

This study investigates the evolutionary origins of host association and polycistronic transcription in trypanosomatids using comparative genomics across 47 genomes.

The paper identifies and characterizes non-genetic and genetic protein variants in human proteomes, showing they contribute to functional diversity.

This study constructs pangenomes of 728 human gut prokaryotic species, revealing genetic diversity linked to stress response, antibiotic resistance, and host characteristics.

This study quantifies mating affinity among natural Saccharomyces cerevisiae strains and finds that adaptive mating preferences enhance hybrid fitness.

The paper analyzes hybrid fitness in S. cerevisiae strains under different carbon sources, finding correlations with parental fitness and genetic distance.

The paper examines dynamic changes in tRNA modifications and abundance during T-cell activation, finding reduced wybutosine and ms2t6A modifications that may increase ribosomal frameshifting and facilitate HIV infection.

The paper investigates how intronic sequence features influence splicing efficiency and mRNA expression in yeast, revealing evolutionary adaptations and mechanisms of alternative splicing.

The paper identifies tRNA subsets essential for cellular proliferation or arrest by CRISPR-based editing and functional analysis in human cell lines.

The paper develops a high-throughput method to assess ribosomal frameshifting potential and identifies factors influencing frameshifting rates in HIV and other organisms.

The paper uses a designed sequence library to study splicing regulation and cell-to-cell variability in splicing decisions.

The paper systematically detects amino acid substitutions in proteomes using mass spectrometry data and reveals that translation errors are primarily caused by codon-anticodon mispairing, with patterns influenced by ribosome velocity and evolutionary constraints.

This study shows yeast cells adapt to inefficient splicing by improving intron splicing efficiency and altering splicing machinery availability without losing introns.

This paper maps high-resolution epigenetic and biosynthetic changes during reprogramming of fibroblasts to iPSCs, identifying two gene modules regulated by different mechanisms.