ArticlePloS one2021
QuASeR: Quantum Accelerated de novo DNA sequence reconstruction.
Article in PloS one, 2021. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 18 papers, 2 of them syntheses that pooled it.
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Who cites it
18 citing papers in PubMed, 2 syntheses or guidelines pooled it.
- Quantum bioinformatics: a systematic review of methods, trends, and challenges.Briefings in bioinformatics · 2026Pooled it
- Quantum computing in bioinformatics: a systematic review mapping.Briefings in bioinformatics · 2024Pooled it
- ASAS-NANP SYMPOSIUM: MATHEMATICAL MODELING IN ANIMAL NUTRITION: quantum computing in agricultural sciences: from theory to reality.Journal of animal science · 2026Review
- Quantum computing and the implementation of precision medicine.NPJ genomic medicine · 2025Review
- Generating three-dimensional genome structures with a variational quantum algorithm.Briefings in bioinformatics · 2025Article
- QOMIC: quantum optimization for motif identification.Bioinformatics advances · 2025Article
- Network medicine-based epistasis detection in complex diseases: ready for quantum computing.Nucleic acids research · 2024Article
- A primer for quantum computing and its applications to healthcare and biomedical research.Journal of the American Medical Informatics Association : JAMIA · 2024Article
- Haplotype-resolved assembly of diploid and polyploid genomes using quantum computing.Cell reports methods · 2024Article
- Quantum Computing in the Next-Generation Computational Biology Landscape: From Protein Folding to Molecular Dynamics.Molecular biotechnology · 2024Review
- New classifications for quantum bioinformatics: Q-bioinformatics, QCt-bioinformatics, QCg-bioinformatics, and QCr-bioinformatics.Briefings in bioinformatics · 2024Review
- Quantum computing on nucleic acid research: Approaching towards next-generation computing.Molecular therapy. Nucleic acids · 2023Article
- A biological sequence comparison algorithm using quantum computers.Scientific reports · 2023Article
- Comparative Study of Variations in Quantum Approximate Optimization Algorithms for the Traveling Salesman Problem.Entropy (Basel, Switzerland) · 2023Article
- Quantum computing algorithms: getting closer to critical problems in computational biology.Briefings in bioinformatics · 2022Review
- Algorithm for DNA sequence assembly by quantum annealing.BMC bioinformatics · 2022Article
- Genome assembly using quantum and quantum-inspired annealing.Scientific reports · 2021Article
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3 authors.
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Abstract
In this article, we present QuASeR, a reference-free DNA sequence reconstruction implementation via de novo assembly on both gate-based and quantum annealing platforms. This is the first time this important application in bioinformatics is modeled using quantum computation. Each one of the four steps of the implementation (TSP, QUBO, Hamiltonians and QAOA) is explained with a proof-of-concept example to target both the genomics research community and quantum application developers in a self-contained manner. The implementation and results on executing the algorithm from a set of DNA reads to a reconstructed sequence, on a gate-based quantum simulator, the D-Wave quantum annealing simulator and hardware are detailed. We also highlight the limitations of current classical simulation and available quantum hardware systems. The implementation is open-source and can be found on https://github.com/QE-Lab/QuASeR.
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