ArticleScientific reports2013
Hierarchical molecular tagging to resolve long continuous sequences by massively parallel sequencing.
Article in Scientific reports, 2013. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 8 papers.
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The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.
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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
8 citing papers in PubMed.
- Access to ultra-long IgG CDRH3 bovine antibody sequences using short read sequencing technology.Molecular immunology · 2021Article
- UMI-linked consensus sequencing enables phylogenetic analysis of directed evolution.Nature communications · 2020Article
- Registry in a tube: multiplexed pools of retrievable parts for genetic design space exploration.Nucleic acids research · 2017Article
- Droplet barcoding for massively parallel single-molecule deep sequencing.Nature communications · 2016Article
- Article
- Phasing of single DNA molecules by massively parallel barcoding.Nature communications · 2015Article
- Dissecting enzyme function with microfluidic-based deep mutational scanning.Proceedings of the National Academy of Sciences of the United States of America · 2015Article
- BAsE-Seq: a method for obtaining long viral haplotypes from short sequence reads.Genome biology · 2014Article
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Authors and funding
6 authors.
Funding
No grant is acknowledged in the PubMed record.
Abstract
Here we demonstrate the use of short-read massive sequencing systems to in effect achieve longer read lengths through hierarchical molecular tagging. We show how indexed and PCR-amplified targeted libraries are degraded, sub-sampled and arrested at timed intervals to achieve pools of differing average length, each of which is indexed with a new tag. By this process, indices of sample origin, molecular origin, and degree of degradation is incorporated in order to achieve a nested hierarchical structure, later to be utilized in the data processing to order the reads over a longer distance than the sequencing system originally allows. With this protocol we show how continuous regions beyond 3000 bp can be decoded by an Illumina sequencing system, and we illustrate the potential applications by calling variants of the lambda genome, analysing TP53 in cancer cell lines, and targeting a variable canine mitochondrial region.
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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.