Kevin Holden

Enhanced RNA-targeting CRISPR-Cas technology in zebrafish

This study optimizes CRISPR-Cas13d for RNA targeting in zebrafish by improving gRNA design, nuclear targeting, and computational prediction, reducing collateral effects.

Global landscape of the host response to SARS-CoV-2 variants reveals viral evolutionary trajectories

The paper systematically analyzes proteomic and genomic data of SARS-CoV-2 variants to identify how mutations affect viral gene expression, host interactions, and immune evasion.

Viral E Protein Neutralizes BET Protein-Mediated Post-Entry Antagonism of SARS-CoV-2

The paper shows that BET proteins are antiviral factors against SARS-CoV-2, and the viral E protein neutralizes BET-mediated post-entry antiviral effects.

Controlling homology-directed repair outcomes in human stem cells with dCas9

This paper improves Cas9 RNP editing in human stem cells to achieve high rates of biallelic homology-directed repair of SNVs by using dCas9 to block re-cutting and damage.

Prime Editing in Mice Reveals the Essentiality of a Single Base in Driving Tissue-Specific Gene Expression

This paper compares CRISPR-mediated HDR and PE2 systems in mice to show PE2's higher fidelity in editing a TFBS, leading to more effective tissue-specific gene inactivation.

Inference of CRISPR Edits from Sanger Trace Data

ICE regresses simulated edit traces onto Sanger reads to quantify indels, multi-guide and knock-in edits without tuning, correlating with amplicon sequencing (r2 = 0.93) and TIDE (r2 = 0.99).