CRISPR screen

MUSICiAn identifies DNA repair genes by analyzing mutational spectra from CRISPR-Cas9 perturbations without controls, revealing known genes and novel candidates.

This study uses CRISPRi to identify genetic factors affecting E. coli adaptation across diets, inflammation, and strains in a mouse model.

This paper introduces a method to deliver synthetic haplotypes containing T2D GWAS variants to hiPSCs to study their functional impact on differentiation.

This paper develops lipid nanoparticles to deliver CRISPR/Cas9 for site-specific CFTR gene integration in CF airway cells, achieving 3-3.5% gene editing and 80% Cl- current restoration.

This paper develops a CURE for undergraduate research in plant synthetic biology using rapid gRNA efficacy screening to study gene regulation in Arabidopsis.

This study develops an in vivo-trained model to predict dual-sgRNA efficiency for exon deletion in mice, achieving an AUC of 0.759.

This study identifies host factors that influence VchCAST activity and demonstrates that the λ-Red recombineering system significantly enhances its editing efficiency in E. coli and other bacteria.

This study shows MEX3A regulates PPARγ expression in colorectal cancer, affecting tumor growth and chemotherapy response.

The paper identifies CHD1 and MAP3K7 as mediators of cancer immunotherapy resistance through CRISPR screens and shows their potential as biomarkers for immunotherapy response.

The paper introduces CRASP-Seq, a method to identify gene regulators of alternative splicing, and finds ZNF207 regulates LMNA splicing in progeria by interacting with U1 snRNP.

LazyNet is a neural-ODE model for CRISPR single-cell screens that provides interpretable mechanistic insights and competitive performance on neuronal and T-cell datasets.

The paper introduces eSPLIT and iSWAP, two methods for generating conditional alleles using short artificial introns, validated in human and mouse models.

This paper develops base-edited CAR T cells targeting CD38 to create an off-the-shelf immunotherapy that avoids allo-rejection and shows anti-leukemic activity.

This paper introduces an RNA-based system called adaptamer that allows precise, reversible control of gene expression using small molecules, demonstrating its function in cell lines and mice.

This paper validates OpenCRISPR-1 in CHO cells, achieving ≥70% INDEL efficiency across multiple genes using a 39-day workflow.

The paper identifies human-specific deletions that affect gene expression by using CRISPRi screening in chimpanzee stem cells.

The paper identifies genetic regulators of neuronal survival across different metabolic environments using CRISPRi screens in human neurons.

SPLiCR-seq identifies novel regulators of IRE1-XBP1 signaling under ER stress, revealing GADD34 as a key modulator with therapeutic potential in CAR-T cell immunotherapy.

This paper introduces a method to rapidly construct gRNA arrays for CRISPR-Cas9 applications and provides a web tool for designing oligo sequences.

The paper tests genetic device performance in monoculture and co-culture, finding that native promoters improve stability in complex environments.

This paper introduces an inducible Cas9 system for tissue- and stage-specific gene editing in zebrafish and mouse embryos, demonstrating its effectiveness in inducing mutations in target genes.

The paper improves CRISPR-Cas12a-assisted gene tagging in mammalian cells by enhancing HDR efficiency and reducing off-target integrations through modified cassettes and repair pathway modulation.

This paper introduces a pooled CRISPR screening platform combined with self-supervised deep learning to infer gene function from morphological phenotypes without target-specific biomarkers.

The paper evaluates the transportability of in-vitro gene perturbation models to in-vivo human phenotypes using CRISPR data and UK Biobank, finding some models are predictive while others are not.

This paper develops inducible CRISPR/Cas9 systems with improved dynamic range and reduced off-target effects for precise gene perturbation.

This study develops a method using developmental regulators to improve soybean transformation and CRISPR-mediated genome editing efficiency.

This paper develops CancerPAM, a bioinformatics pipeline for identifying CRISPR knock-in sites to remodel the tumor microenvironment, enhancing CAR T cell therapy in solid tumors.

This paper benchmarks causal structure learning algorithms for gene regulatory network inference using synthetic and CRISPR perturbation data, finding reliable performance on synthetic data but limitations on real data due to noise and scalability.

The paper develops a conjugation-based CRISPR antifungal platform (COBRA) to deliver gene-targeting machinery from E. coli to yeast, demonstrating effective gene elimination and antifungal activity.