ArticleScientific reports2016
A novel process of viral vector barcoding and library preparation enables high-diversity library generation and recombination-free paired-end sequencing.
Article in Scientific reports, 2016. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 20 papers.
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Who cites it
20 citing papers in PubMed.
- Insertion-Site Proximity to AAV Inverted Terminal Repeats Increases Plasmid Recombination.International journal of molecular sciences · 2026Article
- Review
- Mapping administration route-dependent transduction profiles of commonly used AAV variants in mice by barcode amplicon sequencing.Molecular therapy. Methods & clinical development · 2025Article
- Lineage tracing of stem cell-derived dopamine grafts in a Parkinson's model reveals shared origin of all graft-derived cells.Science advances · 2024Article
- Combining CRISPR-Cas-mediated terminal resolution with a novel genetic workflow to achieve high-diversity adenoviral libraries.Molecular therapy. Methods & clinical development · 2024Article
- Massively Parallel Reporter Assays for High-Throughput In Vivo Analysis of Cis-Regulatory Elements.Journal of cardiovascular development and disease · 2023Review
- Quantification of transgene expression in GSH AAVS1 with a novel CRISPR/Cas9-based approach reveals high transcriptional variation.Molecular therapy. Methods & clinical development · 2022Article
- Adeno-Associated Virus (AAV) Gene Delivery: Dissecting Molecular Interactions upon Cell Entry.Viruses · 2021Review
- Optimization of multi-site nicking mutagenesis for generation of large, user-defined combinatorial libraries.Protein engineering, design & selection : PEDS · 2021Article
- The TRACE-Seq method tracks recombination alleles and identifies clonal reconstitution dynamics of gene targeted human hematopoietic stem cells.Nature communications · 2021Article
- Identification of a myotropic AAV by massively parallel in vivo evaluation of barcoded capsid variants.Nature communications · 2020Article
- A systematic capsid evolution approach performed in vivo for the design of AAV vectors with tailored properties and tropism.Proceedings of the National Academy of Sciences of the United States of America · 2019Article
- Using a barcoded AAV capsid library to select for clinically relevant gene therapy vectors.JCI insight · 2019Article
- Brief update on endocytosis of nanomedicines.Advanced drug delivery reviews · 2019Review
- New Neurons in the Post-ischemic and Injured Brain: Migrating or Resident?Frontiers in neuroscience · 2019Review
- Efficient Gene Transfer to the Central Nervous System by Single-Stranded Anc80L65.Molecular therapy. Methods & clinical development · 2018Article
- Molecular barcoding of viral vectors enables mapping and optimization of mRNARNA (New York, N.Y.) · 2018Article
- Repairing the Brain: Gene Therapy.Journal of Parkinson's disease · 2018Review
- Next-generation AAV vectors for clinical use: an ever-accelerating race.Virus genes · 2017Review
- Next-Generation Gene Therapy for Parkinson's Disease Using Engineered Viral Vectors.Journal of Parkinson's diseaseReview
Corrections and comments
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Authors and funding
6 authors.
Funding
No grant is acknowledged in the PubMed record.
Abstract
Detailed characterization and mapping of oligonucleotide function in vivo is generally a very time consuming effort that only allows for hypothesis driven subsampling of the full sequence to be analysed. Recent advances in deep sequencing together with highly efficient parallel oligonucleotide synthesis and cloning techniques have, however, opened up for entirely new ways to map genetic function in vivo. Here we present a novel, optimized protocol for the generation of universally applicable, barcode labelled, plasmid libraries. The libraries are designed to enable the production of viral vector preparations assessing coding or non-coding RNA function in vivo. When generating high diversity libraries, it is a challenge to achieve efficient cloning, unambiguous barcoding and detailed characterization using low-cost sequencing technologies. With the presented protocol, diversity of above 3 million uniquely barcoded adeno-associated viral (AAV) plasmids can be achieved in a single reaction through a process achievable in any molecular biology laboratory. This approach opens up for a multitude of in vivo assessments from the evaluation of enhancer and promoter regions to the optimization of genome editing. The generated plasmid libraries are also useful for validation of sequencing clustering algorithms and we here validate the newly presented message passing clustering process named Starcode.
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Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.