ArticleMolecular systems biology2017
A method for high-throughput production of sequence-verified DNA libraries and strain collections.
Article in Molecular systems biology, 2017. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 38 papers.
What it found
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Trials whose registry record cites this paper, or whose number appears in the abstract. A trial that started after this paper was published is citing it as background, not reporting it.
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Who cites it
38 citing papers in PubMed.
- Structure, function, and applications of two novel phage recombinases from extreme environments.Nucleic acids research · 2026Article
- Virus Genome Sequences in the Blood of Myalgic Encephalomyelitis/Chronic Fatigue Syndrome Patients.medRxiv : the preprint server for health sciences · 2025Article
- The editable landscape of the yeast genome reveals hotspots of structural variant formation.Science advances · 2025Article
- Article
- Global epistasis in budding yeast driven by many natural variants whose effects scale with fitness.Genetics · 2025Article
- Kingdom-wide CRISPR guide design with ALLEGRO.Nucleic acids research · 2025Article
- Arrayed CRISPRi library to suppress genes required for Schizosaccharomyces pombe viability.The Journal of cell biology · 2025Article
- Pooled PPIseq: Screening the SARS-CoV-2 and human interface with a scalable multiplexed protein-protein interaction assay platform.PloS one · 2025Article
- The rise and future of CRISPR-based approaches for high-throughput genomics.FEMS microbiology reviews · 2024Review
- Arrayed in vivo barcoding for multiplexed sequence verification of plasmid DNA and demultiplexing of pooled libraries.Nucleic acids research · 2024Article
- Genome-scale analysis of interactions between genetic perturbations and natural variation.Nature communications · 2024Article
- Dissecting quantitative trait nucleotides by saturation genome editing.bioRxiv : the preprint server for biology · 2024Article
- Genome-scale analysis of interactions between genetic perturbations and natural variation.bioRxiv : the preprint server for biology · 2024Article
- ArrayedbioRxiv : the preprint server for biology · 2023Article
- Genome-scale CRISPRi screening: A powerful tool in engineering microbiology.Engineering microbiology · 2023Review
- CRISPRi screen highlights chromatin regulation to be involved in formic acid tolerance inEngineering microbiology · 2023Article
- Identification of acetic acid sensitive strains through biosensor-based screening of a Saccharomyces cerevisiae CRISPRi library.Microbial cell factories · 2022Article
- Engineered Production of Strictosidine and Analogues in Yeast.ACS synthetic biology · 2022Article
- Oligo Pools as an Affordable Source of Synthetic DNA for Cost-Effective Library Construction in Protein- and Metabolic Pathway Engineering.Chembiochem : a European journal of chemical biology · 2022Review
- Massively parallel DNA target capture using long adapter single stranded oligonucleotide (LASSO) probes assembled through a novel DNA recombinase mediated methodology.Biotechnology journal · 2022Article
Corrections and comments
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Authors and funding
16 authors.
Funding
Abstract
The low costs of array-synthesized oligonucleotide libraries are empowering rapid advances in quantitative and synthetic biology. However, high synthesis error rates, uneven representation, and lack of access to individual oligonucleotides limit the true potential of these libraries. We have developed a cost-effective method called Recombinase Directed Indexing (REDI), which involves integration of a complex library into yeast, site-specific recombination to index library DNA, and next-generation sequencing to identify desired clones. We used REDI to generate a library of ~3,300 DNA probes that exhibited > 96% purity and remarkable uniformity (> 95% of probes within twofold of the median abundance). Additionally, we created a collection of ~9,000 individually accessible CRISPR interference yeast strains for > 99% of genes required for either fermentative or respiratory growth, demonstrating the utility of REDI for rapid and cost-effective creation of strain collections from oligonucleotide pools. Our approach is adaptable to any complex DNA library, and fundamentally changes how these libraries can be parsed, maintained, propagated, and characterized.
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Registered trials
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.