Ron S. Boger

Structure and evolution-guided design of minimal RNA-guided nucleases

The paper designs active RNA-guided nucleases using AI and structure-guided methods, validated by cryo-EM and functional testing across species.

A Noncontiguous Code for RNA-Guided DNA Recognition Preceded CRISPR

The paper identifies VIPR systems, which use noncontiguous RNA codes for DNA recognition, suggesting an ancient origin of adaptive immunity through viral interactions.

Rapid two-step target capture ensures efficient CRISPR-Cas9-guided genome editing

This study identifies a trade-off between PAM recognition breadth and CRISPR-Cas9 editing efficiency, proposing a two-step target capture mechanism to improve genome editing.

Functional protein mining with conformal guarantees

This paper introduces a method for functional protein mining with statistical guarantees, improving reliability in homology detection and functional annotation.

RNA language models predict mutations that improve RNA function

The paper develops an RNA language model to predict mutations that enhance RNA thermostability using a new database of RNA sequences linked to environmental temperatures.

Eukaryotic RNA-guided endonucleases evolved from a unique clade of bacterial enzymes

The paper traces the evolutionary origin of eukaryotic RNA-guided endonucleases, showing they evolved from a specific clade of bacterial IS607 TnpB enzymes.

crispr2vec: Machine Learning Model Predicts Off-Target Cuts of CRISPR systems

crispr2vec predicts off-target cuts of CRISPR systems using a deep metric learning model trained on sgRNA sequences.