CRISPR and Genetic Engineering

This paper introduces engineered balanced lethal systems using CRISPR-based gene drives to sustainably modify wild population densities for suppression or enhancement.

This study demonstrates CRISPR-HDR efficiency in postnatal cardiac, skeletal muscle, and muscle stem cells, showing developmental stage-dependent HDR rates and successful correction of a Dmd mutation in mdx mice.

This study determines the structure of the VchCAST holo integration complex using cryo-EM, revealing conformational licensing mechanisms for RNA-guided DNA integration.

The paper systematically analyzes Cas12a genome editing in yeast to identify design principles for efficient and stable variant engineering.

This paper demonstrates that reprogrammed tracrRNAs can enable RNA base editing and trans-splicing through Cas9 recruitment, offering a versatile method for RNA manipulation.

This study develops CRISPR-Cas antimicrobials that cotarget essential and defensive genes in Staphylococcus aureus, achieving greater potency and reduced resistance compared to single-targeting approaches.

This paper develops a non-viral CRISPR/dCas9-KRAB system for epigenetic silencing of oncogenic transcription factors in Ewing Sarcoma, showing effective tumor suppression in cell line and patient-derived xenograft models.

This paper introduces a method for efficient, single-step genome editing of bacteriophages using targeted DNA nicking, achieving high recombination rates without reducing phage titers.

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

This study shows that catalytic rewiring of Fanzor2's RuvC-II site activates trans-cleavage, enabling new diagnostic applications.

This paper demonstrates T cells can deliver genome editing machinery to target cells via programmable intercellular interactions.

The paper investigates repair outcomes after I-SceI cleavage in Anopheles gambiae, showing homology-based repair dominates and can generate meiotic drive-like distortion.

This paper develops a retron-based cytosine base editor (RCBE) that enables both C to T and G to A conversions in Escherichia coli, achieving a mutation rate of up to 0.2% in GC-rich regions.

This paper develops a polymeric nanoparticle system to deliver CRISPR/Cas9 components into Arabidopsis pollen, enabling DNA-free genome editing without tissue culture.

The paper introduces FORGE-KI, a modular framework for endogenous knock-in engineering that supports multiple repair pathways and provides software for automated design.

The paper introduces FORGE-CRISPR, a system for constructing CRISPR libraries using modular components, enabling flexible and reusable library generation for functional genomics studies.

POCKET-seq maps dCas9 binding genome-wide to distinguish true and false-positive interactions in CRISPR interference screens.

CORe Designer is a CRISPR tool that allows protein-centric design of guide RNAs and repair templates for proteome engineering, streamlining targeted mutagenesis experiments.

The paper develops a method to improve DGRec mutagenesis efficiency by recoding templates and using an LSTM model to predict mutational profiles.

This study identifies a loop-dependent inhibitory mechanism in AcrIIC1 anti-CRISPR proteins, showing how a unique loop enhances inhibition by disrupting sgRNA binding and R-loop maturation.

The paper develops a dual-locus-targeting strategy using CRISPR/Cas9 and helper-dependent adenoviral vectors to improve CFTR gene replacement in porcine cells.

The paper analyzes CRISPR-Cas9 off-target mutations and translocations at single-cell and tissue-specific levels in mice, revealing context-dependent variability in editing outcomes.

This study shows that DSB end configuration and 3D genome architecture influence translocation frequency and junctional indel patterns using CRISPR/Cas9.

This study develops CRISPR/Cas9 for endogenous genome editing in Entamoeba histolytica, targeting the virulence factor CP5 and advancing genetic tools for the parasite.

The paper tests two CRISPR-based epigenome editing tools in cassava to induce DNA methylation at susceptibility gene promoters, reducing pathogen infection and showing inheritance patterns.

This paper develops in vivo compressed AAV-Perturb-seq to study gene knockouts in cardiomyocytes, finding mitochondrial transcriptome changes are a common response to genetic perturbation.

The paper introduces MitoBEAP, an R package for analysing next-generation sequencing data from mitochondrial base-edited samples to assess off-target effects.

This paper develops a non-viral CRISPR/Cas9 HDR platform for stable transgene knock-in in solid tumor models, achieving up to 60% efficiency in neuroblastoma cells.

The paper develops a cytosine base editing workflow to generate quality-controlled multiplex-knockout hiPSC lines for studying disease mechanisms.

This paper introduces das-CRISPR, a method to achieve monoallelic gene editing in mouse embryos and cell culture by using dCas9 and Cas9 RNPs with the same sgRNA.