ArticleNature communications2017
A scalable double-barcode sequencing platform for characterization of dynamic protein-protein interactions.
Article in Nature communications, 2017. 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.
- Global epistasis in budding yeast driven by many natural variants whose effects scale with fitness.Genetics · 2025Article
- Barcode sequencing: a robust, platform-agnostic method for massively parallel cell-based screens.G3 (Bethesda, Md.) · 2025Article
- Saturated Transposon Analysis in Yeast as a one-step method to quantify the fitness effects of gene disruptions on a genome-wide scale.PloS one · 2025Article
- Pooled PPIseq: Screening the SARS-CoV-2 and human interface with a scalable multiplexed protein-protein interaction assay platform.PloS one · 2025Article
- Bidirectional linkage of DNA barcodes for the multiplexed mapping of higher-order protein interactions in cells.Nature biomedical engineering · 2024Article
- Genome-scale analysis of interactions between genetic perturbations and natural variation.Nature communications · 2024Article
- Genome-scale analysis of interactions between genetic perturbations and natural variation.bioRxiv : the preprint server for biology · 2024Article
- Fit-Seq2.0: An Improved Software for High-Throughput Fitness Measurements Using Pooled Competition Assays.Journal of molecular evolution · 2023Article
- A universal sequencing read interpreter.Science advances · 2023Article
- Complex genetics cause and constrain fungal persistence in different parts of the mammalian body.Genetics · 2022Article
- Barcode fusion genetics-protein-fragment complementation assay (BFG-PCA): tools and resources that expand the potential for binary protein interaction discovery.Nucleic acids research · 2022Article
- The interplay of additivity, dominance, and epistasis on fitness in a diploid yeast cross.Nature communications · 2022Article
- Fluctuating Environments Maintain Genetic Diversity through Neutral Fitness Effects and Balancing Selection.Molecular biology and evolution · 2021Article
- Protein-fragment complementation assays for large-scale analysis of protein-protein interactions.Biochemical Society transactions · 2021Review
- Next-generation yeast-two-hybrid analysis with Y2H-SCORES identifies novel interactors of the MLA immune receptor.PLoS computational biology · 2021Article
- The genotype-phenotype landscape of an allosteric protein.Molecular systems biology · 2021Article
- Measurements drive progress in directed evolution for precise engineering of biological systems.Current opinion in systems biology · 2020Article
- Article
- Genome-Wide Dynamic Evaluation of the UV-Induced DNA Damage Response.G3 (Bethesda, Md.) · 2020Article
- An Ensemble Classifier to Predict Protein-Protein Interactions by Combining PSSM-based Evolutionary Information with Local Binary Pattern Model.International journal of molecular sciences · 2019Article
Corrections and comments
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Authors and funding
5 authors.
Funding
Abstract
Several large-scale efforts have systematically catalogued protein-protein interactions (PPIs) of a cell in a single environment. However, little is known about how the protein interactome changes across environmental perturbations. Current technologies, which assay one PPI at a time, are too low throughput to make it practical to study protein interactome dynamics. Here, we develop a highly parallel protein-protein interaction sequencing (PPiSeq) platform that uses a novel double barcoding system in conjunction with the dihydrofolate reductase protein-fragment complementation assay in Saccharomyces cerevisiae. PPiSeq detects PPIs at a rate that is on par with current assays and, in contrast with current methods, quantitatively scores PPIs with enough accuracy and sensitivity to detect changes across environments. Both PPI scoring and the bulk of strain construction can be performed with cell pools, making the assay scalable and easily reproduced across environments. PPiSeq is therefore a powerful new tool for large-scale investigations of dynamic PPIs.
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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.