ArticleBioinformatics (Oxford, England)2020
MESA: automated assessment of synthetic DNA fragments and simulation of DNA synthesis, storage, sequencing and PCR errors.
Article in Bioinformatics (Oxford, England), 2020. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 22 papers.
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Who cites it
22 citing papers in PubMed.
- Towards density-optimal DNA storage with practical bijective coding.Nature communications · 2026Article
- DNA Flap-Mediated Control of Transcription for Programmable RNA Synthesis.Angewandte Chemie (International ed. in English) · 2026Article
- From spacecraft ranging to massive DNA data storage: Composite ranging codes as indices and error correction references.Science advances · 2026Article
- DNA StairLoop: enabling high-fidelity data recovery and robust error correction in DNA-based data storage.Nature communications · 2025Article
- DNA-CTMF: Reconstruct high quality image from lossy DNA storage via Pixel-Base codebook and median filter.Synthetic and systems biotechnology · 2025Article
- Dna-storalator: a computational simulator for DNA data storage.BMC bioinformatics · 2025Article
- Determination of IL-17, BCL-3 and IκBζ expression levels in the gingival crevicular fluid of psoriasis patients.Archives of dermatological research · 2025Observational
- Data recovery methods for DNA storage based on fountain codes.Computational and structural biotechnology journal · 2024Article
- Optimizing fountain codes for DNA data storage.Computational and structural biotechnology journal · 2024Article
- Article
- DNA Bloom Filter enables anti-contamination and file version control for DNA-based data storage.Briefings in bioinformatics · 2024Article
- A digital twin for DNA data storage based on comprehensive quantification of errors and biases.Nature communications · 2023Article
- Content-based filter queries on DNA data storage systems.Scientific reports · 2023Article
- DNA-Aeon provides flexible arithmetic coding for constraint adherence and error correction in DNA storage.Nature communications · 2023Article
- DNAsmart: Multiple attribute ranking tool for DNA data storage systems.Computational and structural biotechnology journal · 2023Article
- RepairNatrix: a Snakemake workflow for processing DNA sequencing data for DNA storage.Bioinformatics advances · 2023Article
- DeSP: a systematic DNA storage error simulation pipeline.BMC bioinformatics · 2022Article
- Fractal construction of constrained code words for DNA storage systems.Nucleic acids research · 2022Article
- High-scale random access on DNA storage systems.NAR genomics and bioinformatics · 2022Article
- NOREC4DNA: using near-optimal rateless erasure codes for DNA storage.BMC bioinformatics · 2021Article
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Authors and funding
6 authors.
Funding
No grant is acknowledged in the PubMed record.
Abstract
summaryThe development of de novo DNA synthesis, polymerase chain reaction (PCR), DNA sequencing and molecular cloning gave researchers unprecedented control over DNA and DNA-mediated processes. To reduce the error probabilities of these techniques, DNA composition has to adhere to method-dependent restrictions. To comply with such restrictions, a synthetic DNA fragment is often adjusted manually or by using custom-made scripts. In this article, we present MESA (Mosla Error Simulator), a web application for the assessment of DNA fragments based on limitations of DNA synthesis, amplification, cloning, sequencing methods and biological restrictions of host organisms. Furthermore, MESA can be used to simulate errors during synthesis, PCR, storage and sequencing processes. AVAILABILITY AND IMPLEMENTATION: MESA is available at mesa.mosla.de, with the source code available at github.com/umr-ds/mesa_dna_sim. CONTACT: dominik.heider@uni-marburg.de. SUPPLEMENTARY INFORMATION: Supplementary data are available at Bioinformatics online.
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