CRISPR screen

The paper uses paired CRISPR screens to identify cis- and trans-regulatory elements controlling PD-L1 expression in PDAC cells and links them to clinical outcomes.

The paper successfully delivers CRISPR-Cas9 via a baculovirus vector to knock down AmOctβ2R in honey bee brain neurons, leading to appetite suppression.

The paper investigates how DNA repair genes influence Cas9-induced mutations by analyzing mutational outcomes across 2,838 synthetic targets in mouse cells, revealing gene-specific roles and improving predictive models.

This study shows IFN-γ enhances TLR-induced inflammatory gene expression through IRF1, which is critical for synergistic activation of genes like IL6 and TNF in human monocytes.

The paper introduces Exorcise, a tool to reannotate CRISPR libraries to user-defined genomes, improving targeting accuracy and reducing bias in screens.

The paper presents a Cas12a-based system using multiplexed sgRNAs to achieve efficient and specific gene knockouts in Drosophila with minimal off-target effects.

The paper introduces SABER-seq, a CRISPR-Cas-based method to record Notch signaling in zebrafish brains, and identifies cell types influenced by Notch signaling.

This study introduces {Psi}DNA, a DNA-based guide for Cas12 enzymes that enables specific and efficient RNA targeting, achieving 100% accuracy in detecting HCV RNA.

The paper benchmarks a high-efficiency prime editing platform for multiplexed dropout screening of genetic variants, identifying negative growth phenotypes for nonsense mutations and splice-disrupting synonymous mutations.

The paper evaluates how base editor design features affect editing efficiency and mutation patterns in mammalian cells, identifying DivA-BE as the most effective variant.

Perturb-DBiT co-sequences spatial transcriptomes and gRNAs on one tissue section, supporting genome-wide in vivo CRISPR screens in FFPE and fresh-frozen tumors across three cancer models.

This paper introduces append editing, a method that uses ADP-ribosylation to achieve distinct genome editing outcomes in bacteria and eukaryotes.

The paper develops an immortalized lizard fibroblast cell line to study reptilian gene function, showing conserved and diverged aspects of Hedgehog signaling in anoles.

This paper introduces inDecay, a few-shot learning system for predicting CRISPR editing outcomes in cell lines and zygotes, achieving high accuracy with minimal data.

This paper develops a temperature-sensitive and interferon-silent Sendai virus vector for CRISPR-Cas9 delivery, achieving high gene editing efficiency in human cells without triggering immune responses.

The paper develops an AI model to identify core and context-specific essential genes using CRISPR and omics data, finding 3,213 pan-cancer CEGs with 60% overlap to prior studies.

The paper develops HT-recruit to measure transcriptional effector function across contexts and identifies context-dependent effectors for CRISPR-based transcription control.

The paper introduces CIMPLE, a rationally designed CRISPRi pooled library, to uncover antibiotic targets by improving genomic coverage of essential genes during drug exposure.

This study characterizes the transcriptomic effects of Cas13bt3 in retinal cells and demonstrates its efficacy in silencing VEGFA mRNA in human retinal organoids and mouse models.

The paper identifies viral crlRNAs that suppress bacterial immunity by reprogramming Cas proteins and demonstrates their potential for mammalian genome editing.

The paper introduces COMET, a high-throughput screening platform for identifying transcriptional modulators by testing combinatorial dCas9-based fusion proteins, and finds over 5800 significant hits that modulate transcription.

The paper evaluates near-PAMless base editors and develops a predictive model to forecast editing outcomes, expanding the scope of gene editing.

The paper develops a deep mutational scanning pipeline for anti-CRISPR proteins in E. coli, revealing their mutational tolerance and redundancy, and validates findings in mammalian cells.

The paper shows that bystander base editing with ABE8e impairs visual function restoration in LCA model mice by causing structural and functional disruptions in RPE65.

The paper uses CRISPR-Cas9 screens to identify genes affecting stem cell fitness versus pluripotency identity, finding distinct and overlapping roles for chromatin and metabolic regulators.

This paper demonstrates the delivery of functional Cas:DNA nucleoprotein complexes into recipient bacteria via a Type IV Secretion System, enabling targeted genetic modification without requiring nuclease expression in target cells.

This study demonstrates that lipid nanoparticle-delivered thermostable Cas9 RNPs achieve high-efficiency genome editing in mouse liver and lung tissues.

This study uses CRISPR perturbations in CD4+ T cells to infer a gene regulatory network, revealing trans-regulatory mechanisms linking immune GWAS genes to signaling pathways.

This paper designs artificial CRISPR-Cas13a guide RNAs using model-directed algorithms, showing improved sensitivity and variant discrimination in nucleic acid detection.

This paper introduces an IFFL-based CRISPR-Cas system to reduce gene expression variability, demonstrating improved dosage control for RAI1 in a mouse model.