CRISPR screen

This paper improves variant effect quantification in base editing screens by integrating genotypic and phenotypic data using a Bayesian network called BEAN.

This paper demonstrates successful in vivo editing of ApoE4 to E3 in Alzheimer's model mice using synthetic exosome-delivered CRISPR, achieving low but detectable editing efficiency.

This paper develops a lentiviral system to simultaneously repress multiple genes using zinc finger repressors, showing efficient and long-term gene silencing without DNA editing.

Language models trained on over one million mined CRISPR operons generated Cas9-like effectors and matching guide RNAs, and an AI-designed editor is reported to edit the human genome precisely.

The paper introduces PHAGEPACK, a CRISPR-based assay to systematically identify host genes affecting phage infectivity, revealing new pathways in both permissive and non-permissive E. coli.

This study identifies Rheb as a molecular substrate in the nucleus accumbens that enables drugs of abuse to hijack reward circuits and suppress natural reward responses.

This paper introduces launch-dCas9, a machine learning framework to predict guide RNA effects in CRISPR epigenome editing, showing high accuracy and improved gRNA selection.

The paper introduces a strategy to enhance C>U RNA editors using IDR-derived domains, improving both on- and off-target editing efficiency.

The paper identifies mechanisms by which an RT-Cas1 fusion protein integrates RNA into DNA genomes through cDNA synthesis and site-specific integration.

The paper investigates off-target activity in CRISPRi by analyzing a genome-wide sgRNA library and finds that seed sequences mediate most off-target effects.

This paper introduces a method for targeted gene editing using RNA-templated DNA repair pathways in human cells, achieving high efficiency and fidelity.

This paper edits introns of HSPCs to restrict transgene expression to the myeloid lineage, demonstrating efficacy in treating metabolic diseases and reaching the brain.

The paper develops CRISPR-Cas tools to independently control transcription and translation in E. coli, showing reduced polar effects with dCas13 and enabling multiplexed gene regulation for biosynthesis.

This paper describes a non-viral CRISPR-Cas9 transfection method for editing primary human dorsal root ganglion neurons and confirms edits at genomic, protein, and functional levels.

CRISPR-MIP replaces PCR for sgRNA quantification, revealing GC and oversampling biases in pooled CRISPR screens.

The paper identifies optimized protein-based enhancers of HDR in human HSPCs through functional screening, improving HDR efficiency without increasing off-target effects.

This study reprograms genetic circuits in bacteria by spatially positioning circuit components to optimize performance and enable new functions without altering DNA sequences.

This study identifies an epigenetically controlled memory astrocyte subset that exacerbates CNS pathology in EAE and MS by promoting pro-inflammatory responses.

This paper describes a CRISPR-dCas13 system to induce stop codon readthrough in specific transcripts, showing enhanced readthrough in AGO1, VEGFA, and HBB mRNAs.

CROPseq-multi enables multiplexed CRISPR perturbations across various screening methods with improved barcode detection and compatibility.

This study repurposes CRISPR-Cas13 systems to enable trans-splicing of exogenous RNA fragments into endogenous pre-mRNA, improving editing of large mRNA segments in mammalian cells.

This study uses CRISPR-A to enhance expression of CHD8 and SCN2A in organoids, rescuing haploinsufficiency and associated phenotypes in ASD models.

This paper introduces a trisomy 21-linked CSF2RB mutation in microglia that reduces neuroinflammation and enhances phagocytic functions, offering potential for AD therapy.

The paper develops a Sparse supervised autoencoder to detect subtle transcriptomic changes from CRISPRi screens of lncRNAs in lung cancer cells under hypoxia.

The paper introduces a modular CRISPR vector assembly system called Fragmid, enabling rapid creation and testing of CRISPR technologies through combinatorial design and pooled screening.

The paper develops CRISPRtOE, a genome-scale overexpression platform for Proteobacteria, demonstrating its use in Escherichia coli and Zymomonas mobilis to identify antibiotic and engineering targets.

The paper develops a machine learning model to identify functional lncRNAs and validates SNHG6's role in hematopoietic differentiation and leukemia.

The paper develops a CRISPRi-based screening platform to identify genes affecting neuronal excitability in human iPSC-derived neurons, revealing new links to neurodegenerative and neurodevelopmental disorders.

The paper identifies MPC1 as a key driver of PARP inhibitor resistance in NSCLC lung cancer through a metabolism-focused CRISPR screen.