ArticlePloS one2012
Generalized DNA barcode design based on Hamming codes.
Article in PloS one, 2012. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 46 papers.
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Trials whose registry record cites this paper, or whose number appears in the abstract. A trial that started after this paper was published is citing it as background, not reporting it.
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Who cites it
46 citing papers in PubMed.
- A Scalable and Cost-Effective In-Line Barcoding Strategy for Standardized 16S rRNA Gene Amplicon Sequencing: Performance Evaluation and Bias Assessment.Molecular ecology resources · 2026Article
- Fast barcode calling based onPNAS nexus · 2026Article
- Evaluation of multiplexed liquid glycan Array (LiGA) for serological detection of glycan-binding antibodies.Glycobiology · 2025Article
- Open-Source DNA-Encoded Library informatics Package for Design, Decoding, and Analysis: DELi.bioRxiv : the preprint server for biology · 2025Article
- A Versatile High-Throughput Single-Cell Screening Platform for Profiling Antigen-Specific Long-Lived B Cells in Blood and Bone Marrow.Advanced science (Weinheim, Baden-Wurttemberg, Germany) · 2025Article
- Lentiviral vectors for precise expression to treat X-linked lymphoproliferative disease.Molecular therapy. Methods & clinical development · 2024Article
- UM171 enhances fitness and engraftment of gene-modified hematopoietic stem cells from patients with sickle cell disease.Blood advances · 2024Article
- Extracting, filtering and simulating cellular barcodes using CellBarcode tools.Nature computational science · 2024Article
- Gene-by-environment interactions are pervasive among natural genetic variants.Cell genomics · 2023Article
- Widespread epistasis among beneficial genetic variants revealed by high-throughput genome editing.Cell genomics · 2023Article
- DNAsmart: Multiple attribute ranking tool for DNA data storage systems.Computational and structural biotechnology journal · 2023Article
- Fast trimer statistics facilitate accurate decoding of large random DNA barcode sets even at large sequencing error rates.PNAS nexus · 2022Article
- Design considerations for advancing data storage with synthetic DNA for long-term archiving.Materials today. Bio · 2022Review
- Development of a program for in silico optimized selection of oligonucleotide-based molecular barcodes.PloS one · 2021Article
- μCB-seq: microfluidic cell barcoding and sequencing for high-resolution imaging and sequencing of single cells.Lab on a chip · 2020Article
- ANP32 Proteins Are Essential for Influenza Virus Replication in Human Cells.Journal of virology · 2019Article
- DNABarcodeCompatibility: an R-package for optimizing DNA-barcode combinations in multiplex sequencing experiments.Bioinformatics (Oxford, England) · 2019Article
- Towards Quantitative Microbiome Community Profiling Using Internal Standards.Applied and environmental microbiology · 2019Article
- A highly parallel strategy for storage of digital information in living cells.BMC biotechnology · 2018Article
- Molecular archaeoparasitology identifies cultural changes in the Medieval Hanseatic trading centre of Lübeck.Proceedings. Biological sciences · 2018Article
Corrections and comments
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1 author.
Funding
No grant is acknowledged in the PubMed record.
Abstract
The diversity and scope of multiplex parallel sequencing applications is steadily increasing. Critically, multiplex parallel sequencing applications methods rely on the use of barcoded primers for sample identification, and the quality of the barcodes directly impacts the quality of the resulting sequence data. Inspection of the recent publications reveals a surprisingly variable quality of the barcodes employed. Some barcodes are made in a semi empirical fashion, without quantitative consideration of error correction or minimal distance properties. After systematic comparison of published barcode sets, including commercially distributed barcoded primers from Illumina and Epicentre, methods for improved, Hamming code-based sequences are suggested and illustrated. Hamming barcodes can be employed for DNA tag designs in many different ways while preserving minimal distance and error-correcting properties. In addition, Hamming barcodes remain flexible with regard to essential biological parameters such as sequence redundancy and GC content. Wider adoption of improved Hamming barcodes is encouraged in multiplex parallel sequencing applications.
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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.