ArticleProceedings of the National Academy of Sciences of the United States of America2011
Phenotype-information-phenotype cycle for deconvolution of combinatorial antibody libraries selected against complex systems.
Article in Proceedings of the National Academy of Sciences of the United States of America, 2011. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 28 papers.
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Who cites it
28 citing papers in PubMed.
- Mining antibody functionality via AI-guided structural landscape profiling.Nature communications · 2026Article
- An Atlas of Variant Effects to understand the genome at nucleotide resolution.Genome biology · 2023Article
- Accurate profiling of full-length Fv in highly homologous antibody libraries using UMI tagged short reads.Nucleic acids research · 2023Article
- Concerted Antibody and Antigen Discovery by Differential Whole-cell Phage Display Selections and Multi-omic Target Deconvolution.Journal of molecular biology · 2023Article
- Mapping Polyclonal Antibody Responses to Infection Using Next-Generation Phage Display.Methods in molecular biology (Clifton, N.J.) · 2023Article
- Review
- Generation of synthetic antibody fragments with optimal complementarity determining region lengths for Notch-1 recognition.Frontiers in microbiology · 2022Article
- CellectSeq: In silico discovery of antibodies targeting integral membrane proteins combining in situ selections and next-generation sequencing.Communications biology · 2021Article
- High-Throughput Generation of In Silico Derived Synthetic Antibodies via One-step Enzymatic DNA Assembly of Fragments.Molecular biotechnology · 2020Article
- MaveDB: an open-source platform to distribute and interpret data from multiplexed assays of variant effect.Genome biology · 2019Article
- Advances in the Production and Batch Reformatting of Phage Antibody Libraries.Molecular biotechnology · 2019Review
- Phenotypic selection with an intrabody library reveals an anti-apoptotic function of PKM2 requiring Mitofusin-1.PLoS biology · 2019Article
- Next-generation sequencing-guided identification and reconstruction of antibody CDR combinations from phage selection outputs.Nucleic acids research · 2019Article
- Discovery of peptide ligands targeting a specific ubiquitin-like domain-binding site in the deubiquitinase USP11.The Journal of biological chemistry · 2019Article
- SAROTUP: a suite of tools for finding potential target-unrelated peptides from phage display data.International journal of biological sciences · 2019Article
- Deep Mining of Complex Antibody Phage Pools Generated by Cell Panning Enables Discovery of Rare Antibodies Binding New Targets and Epitopes.Frontiers in pharmacology · 2019Article
- Antibody selection using clonal cocultivation ofProceedings of the National Academy of Sciences of the United States of America · 2018Article
- Phage display peptide libraries: deviations from randomness and correctives.Nucleic acids research · 2018Article
- Compositional Bias in Naïve and Chemically-modified Phage-Displayed Libraries uncovered by Paired-end Deep Sequencing.Scientific reports · 2018Article
- Integrating high-throughput screening and sequencing for monoclonal antibody discovery and engineering.Immunology · 2018Review
Corrections and comments
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Authors and funding
6 authors.
Funding
Abstract
Use of large combinatorial antibody libraries and next-generation sequencing of nucleic acids are two of the most powerful methods in modern molecular biology. The libraries are screened using the principles of evolutionary selection, albeit in real time, to enrich for members with a particular phenotype. This selective process necessarily results in the loss of information about less-fit molecules. On the other hand, sequencing of the library, by itself, gives information that is mostly unrelated to phenotype. If the two methods could be combined, the full potential of very large molecular libraries could be realized. Here we report the implementation of a phenotype-information-phenotype cycle that integrates information and gene recovery. After selection for phage-encoded antibodies that bind to targets expressed on the surface of Escherichia coli, the information content of the selected pool is obtained by pyrosequencing. Sequences that encode specific antibodies are identified by a bioinformatic analysis and recovered by a stringent affinity method that is uniquely suited for gene isolation from a highly degenerate collection of nucleic acids. This approach can be generalized for selection of antibodies against targets that are present as minor components of complex systems.
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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.