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Research articles
Directed evolution of engineered virus-like particles with improved production and transduction efficiencies
Engineered virus-like particles are improved through directed evolution.
- Aditya Raguram
- David R. Liu
Multimodal scanning of genetic variants with base and prime editing
Thousands of rare oncogene variants are evaluated using multimodal gene editing screens.
- Olivier Belli
- Kyriaki Karava
- Randall J. Platt
Saturation profiling of drug-resistant genetic variants using prime editing
PEER-seq characterizes the drug resistance profiles of thousands of genetic variants.
- Younggwang Kim
- Hyeong-Cheol Oh
- Hyongbum Henry Kim
Binary vector copy number engineering improves Agrobacterium -mediated transformation
Agrobacterium -mediated transformation of plants and fungi is enhanced by plasmid copy number variants.
- Matthew J. Szarzanowicz
- Lucas M. Waldburger
- Patrick M. Shih
Site-specific drug release of monomethyl fumarate to treat oxidative stress disorders
Peroxides localized at oxidative stress sites trigger prodrug release for treating chronic pain in mice.
- Thomas D. Avery
- Peter M. Grace
Development of compact transcriptional effectors using high-throughput measurements in diverse contexts
Improved effectors for CRISPRi/CRISPRa are developed following high-throughput screening of transcriptional domains.
- Mike V. Van
- Michael C. Bassik
A resurrected ancestor of Cas12a expands target access and substrate recognition for nucleic acid editing and detection
ReChb is a Cas12a nuclease with expanded target access and substrate recognition.
- Ylenia Jabalera
- Igor Tascón
- Raul Perez-Jimenez
Comprehensive genome analysis and variant detection at scale using DRAGEN
DRAGEN rapidly identifies diverse types of genetic variants.
- Sairam Behera
- Severine Catreux
- Fritz J. Sedlazeck
A structurally informed human protein–protein interactome reveals proteome-wide perturbations caused by disease mutations
Protein–protein interactomes incorporating structural data predict the functional consequences of disease mutations.
- Dapeng Xiong
- Yunguang Qiu
Gold-siRNA supraclusters enhance the anti-tumor immune response of stereotactic ablative radiotherapy at primary and metastatic tumors
Gold-siRNA clusters boost the immune response of radiotherapy against primary and distant tumors.
- Yuyan Jiang
- Hongbin Cao
- Quynh-Thu Le
Droplet Hi-C enables scalable, single-cell profiling of chromatin architecture in heterogeneous tissues
Chromatin organization is measured in single cells using droplet microfluidics.
Lung and liver editing by lipid nanoparticle delivery of a stable CRISPR–Cas9 ribonucleoprotein
An engineered clustered regularly interspaced short palindromic repeat ribonucleoprotein delivered in lipid nanoparticles efficiently edits cells in vivo.
- Jennifer A. Doudna
Global profiling of protein complex dynamics with an experimental library of protein interaction markers
FLiP–MS uses a library of protein–protein interaction markers to understand protein complex dynamics.
- Christian Dörig
- Cathy Marulli
- Paola Picotti
Model-directed generation of artificial CRISPR–Cas13a guide RNA sequences improves nucleic acid detection
Model-directed generative design is applied to CRISPR–Cas13a guide RNAs, outperforming natural sequences.
- Sreekar Mantena
- Priya P. Pillai
- Hayden C. Metsky
A comprehensive proteogenomic pipeline for neoantigen discovery to advance personalized cancer immunotherapy
The neoantigen discovery pipeline NeoDisc incorporates mass spectrometry immunopeptidomics data.
- Florian Huber
- Marion Arnaud
- Michal Bassani-Sternberg
A community effort to optimize sequence-based deep learning models of gene regulation
A benchmarking competition improves tools that predict how regulatory regions control gene expression.
- Abdul Muntakim Rafi
- Daria Nogina
- Carl G. de Boer
One-step nanoscale expansion microscopy reveals individual protein shapes
Combining expansion microscopy with super-resolution radial fluctuations captures the morphology of single proteins.
- Ali H. Shaib
- Abed Alrahman Chouaib
- Silvio O. Rizzoli
A circularly permuted CasRx platform for efficient, site-specific RNA editing
Site-specific and efficient RNA editing is achieved with a CasRx editor.
- Yuanming Wang
- Kaiwen Ivy Liu
- Meng How Tan
Rapid species-level metagenome profiling and containment estimation with sylph
The microbial composition of metagenomes is identified in seconds by profiling against large databases.
- Yun William Yu
Scalable, compressed phenotypic screening using pooled perturbations
Phenotypic screens in organoids and primary cells are scaled up using perturbation pooling.
- Walaa E. Kattan
- Alex K. Shalek
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