ArticleNature communications2015
Phasing of single DNA molecules by massively parallel barcoding.
Article in Nature communications, 2015. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 21 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
21 citing papers in PubMed.
- Using dried blood spot samples from a trio for linked-read whole-exome sequencing.European journal of human genetics : EJHG · 2019Trial
- Nanopore Long-Read Sequencing as a First-Tier Diagnostic Test to Detect Repeat Expansions in Neurological Disorders.International journal of molecular sciences · 2025Article
- Targeted phasing of 2-200 kilobase DNA fragments with a short-read sequencer and a single-tube linked-read library method.Scientific reports · 2024Article
- Emerging ctDNA detection strategies in clinical cancer theranostics.Smart medicine · 2023Review
- Characterizing single extracellular vesicles by droplet barcode sequencing for protein analysis.Journal of extracellular vesicles · 2022Article
- Three-dimensional structure-guided evolution of a ribosome with tethered subunits.Nature chemical biology · 2022Article
- High-throughput identification and quantification of single bacterial cells in the microbiota.Nature communications · 2022Article
- Droplet Microfluidics for Microbial Biotechnology.Advances in biochemical engineering/biotechnology · 2022Article
- UMI-linked consensus sequencing enables phylogenetic analysis of directed evolution.Nature communications · 2020Article
- Bridging non-overlapping reads illuminates high-order epistasis between distal protein sites in a GPCR.Nature communications · 2020Article
- High throughput barcoding method for genome-scale phasing.Scientific reports · 2019Article
- Microfluidic bead encapsulation above 20 kHz with triggered drop formation.Lab on a chip · 2018Article
- Chromosome-scale mega-haplotypes enable digital karyotyping of cancer aneuploidy.Nucleic acids research · 2017Article
- Deep sequencing methods for protein engineering and design.Current opinion in structural biology · 2017Review
- Droplet Barcode Sequencing for targeted linked-read haplotyping of single DNA molecules.Nucleic acids research · 2017Article
- A cost effective 5΄ selective single cell transcriptome profiling approach with improved UMI design.Nucleic acids research · 2017Article
- Population Heterogeneity in Mutation Rate Increases the Frequency of Higher-Order Mutants and Reduces Long-Term Mutational Load.Molecular biology and evolution · 2017Article
- Article
- Haplotyping germline and cancer genomes with high-throughput linked-read sequencing.Nature biotechnology · 2016Article
- Diversity of Pico- to Mesoplankton along the 2000 km Salinity Gradient of the Baltic Sea.Frontiers in microbiology · 2016Article
Corrections and comments
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Authors and funding
6 authors.
Funding
No grant is acknowledged in the PubMed record.
Abstract
High-throughput sequencing platforms mainly produce short-read data, resulting in a loss of phasing information for many of the genetic variants analysed. For certain applications, it is vital to know which variant alleles are connected to each individual DNA molecule. Here we demonstrate a method for massively parallel barcoding and phasing of single DNA molecules. First, a primer library with millions of uniquely barcoded beads is generated. When compartmentalized with single DNA molecules, the beads can be used to amplify and tag any target sequences of interest, enabling coupling of the biological information from multiple loci. We apply the assay to bacterial 16S sequencing and up to 94% of the hypothesized phasing events are shown to originate from single molecules. The method enables use of widely available short-read-sequencing platforms to study long single molecules within a complex sample, without losing phase information.
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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.