ArticleNucleic acids research2014
Identification of target-binding peptide motifs by high-throughput sequencing of phage-selected peptides.
Article in Nucleic acids research, 2014. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 37 papers.
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Who cites it
37 citing papers in PubMed, 86 citations in OpenAlex.
- Review
- PANCS-Binders: a rapid, high-throughput binder discovery platform.Nature methods · 2025Article
- Review
- A comparative analysis of sequence composition in different lots of a phage display peptide library during amplification.Virology journal · 2025Article
- High-throughput protein binder discovery by rapid in vivo selection.bioRxiv : the preprint server for biology · 2025Article
- On the origin of non-specific binders isolated in the selection of phage display peptide libraries.Frontiers in microbiology · 2025Review
- Revealing novel and conservative T-cell epitopes with MHC B2 restriction on H9N2 avian influenza virus (AIV).The Journal of biological chemistry · 2024Article
- Article
- CyclicPepedia: a knowledge base of natural and synthetic cyclic peptides.Briefings in bioinformatics · 2024Article
- Depth of Sequencing Plays a Determining Role in the Characterization of Phage Display Peptide Libraries by NGS.International journal of molecular sciences · 2023Article
- De novo mapping of α-helix recognition sites on protein surfaces using unbiased libraries.Proceedings of the National Academy of Sciences of the United States of America · 2022Article
- Pattern enrichment analysis for phage selection of stapled peptide ligands.Chemical science · 2022Article
- Synergetic collision and space separation in microfluidic chip for efficient affinity-discriminated molecular selection.Proceedings of the National Academy of Sciences of the United States of America · 2022Article
- Modern and prebiotic amino acids support distinct structural profiles in proteins.Open biology · 2022Article
- Focused peptide library screening as a route to a superior affinity ligand for antibody purification.Scientific reports · 2021Article
- CoLiDe: Combinatorial Library Design tool for probing protein sequence space.Bioinformatics (Oxford, England) · 2021Article
- In vivo phage display: identification of organ-specific peptides using deep sequencing and differential profiling across tissues.Nucleic acids research · 2021Article
- Quantitative profiling of protease specificity.PLoS computational biology · 2021Article
- Streamlined phage display library protocols for identification of insect gut binding peptides highlight peptide specificity.Current research in insect science · 2021Article
- Discovery of peptide ligands targeting a specific ubiquitin-like domain-binding site in the deubiquitinase USP11.The Journal of biological chemistry · 2019Article
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Authors and funding
4 authors at 1 institution in 1 country.
Funding
No grant is acknowledged in the PubMed record.
Abstract
High-throughput sequencing was previously applied to phage-selected peptides in order to gain insight into the abundance and diversity of isolated peptides. Herein we developed a procedure to efficiently compare the sequences of large numbers of phage-selected peptides for the purpose of identifying target-binding peptide motifs. We applied the procedure to analyze bicyclic peptides isolated against five different protein targets: sortase A, urokinase-type plasminogen activator, coagulation factor XII, plasma kallikrein and streptavidin. We optimized sequence data filters to reduce biases originating from the sequencing method and developed sequence correction algorithms to prevent identification of false consensus motifs. With our strategy, we were able to identify rare target-binding peptide motifs, as well as to define more precisely consensus sequences and sub-groups of consensus sequences. This information is valuable to choose peptide leads for drug development and it facilitates identification of epitopes. We furthermore show that binding motifs can be identified after a single round of phage selection. Such a selection regimen reduces propagation-related bias and may facilitate application of phage display in non-specialized laboratories, as procedures such as bacterial infection, phage propagation and purification are not required.
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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.