ArticlePloS one2014
Exome sequencing from nanogram amounts of starting DNA: comparing three approaches.
Article in PloS one, 2014. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 14 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
14 citing papers in PubMed.
- The Effects of Herbarium Specimen Characteristics on Short-Read NGS Sequencing Success in Nearly 8000 Specimens: Old, Degraded Samples Have Lower DNA Yields but Consistent Sequencing Success.Frontiers in plant science · 2021Article
- Whole exome sequencing: a state-of-the-art approach for defining (and exploring!) genetic landscapes in pediatric nephrology.Pediatric nephrology (Berlin, Germany) · 2018Review
- The spectrum of somatic mutations in monoclonal gammopathy of undetermined significance indicates a less complex genomic landscape than that in multiple myeloma.Haematologica · 2017Article
- Technological considerations for genome-guided diagnosis and management of cancer.Genome medicine · 2016Review
- Pre-Analytical Considerations for Successful Next-Generation Sequencing (NGS): Challenges and Opportunities for Formalin-Fixed and Paraffin-Embedded Tumor Tissue (FFPE) Samples.International journal of molecular sciences · 2016Article
- Genome sequencing of a single tardigrade Hypsibius dujardini individual.Scientific data · 2016Article
- No evidence for extensive horizontal gene transfer from the draft genome of a tardigrade.Proceedings of the National Academy of Sciences of the United States of America · 2016Article
- The minimal amount of starting DNA for Agilent's hybrid capture-based targeted massively parallel sequencing.Scientific reports · 2016Article
- Whole exome sequencing links dental tumor to an autosomal-dominant mutation in ANO5 gene associated with gnathodiaphyseal dysplasia and muscle dystrophies.Scientific reports · 2016Article
- Targeted single molecule mutation detection with massively parallel sequencing.Nucleic acids research · 2016Article
- Article
- A Novel T55A Variant of Gs α Associated with Impaired cAMP Production, Bone Fragility, and Osteolysis.Case reports in endocrinology · 2016Article
- Development and validation of a sample sparing strategy for HLA typing utilizing next generation sequencing.Human immunology · 2015Article
- A Comparison of Variant Calling Pipelines Using Genome in a Bottle as a Reference.BioMed research international · 2015Article
Corrections and comments
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Authors and funding
6 authors.
Funding
No grant is acknowledged in the PubMed record.
Abstract
Hybridization-based target enrichment protocols require relatively large starting amounts of genomic DNA, which is not always available. Here, we tested three approaches to pre-capture library preparation starting from 10 ng of genomic DNA: (i and ii) whole-genome amplification of DNA samples with REPLI-g (Qiagen) and GenomePlex (Sigma) kits followed by standard library preparation, and (iii) library construction with a low input oriented ThruPLEX kit (Rubicon Genomics). Exome capture with Agilent SureSelectXT2 Human AllExon v4+UTRs capture probes, and HiSeq2000 sequencing were performed for test libraries along with the control library prepared from 1 µg of starting DNA. Tested protocols were characterized in terms of mapping efficiency, enrichment ratio, coverage of the target region, and reliability of SNP genotyping. REPLI-g- and ThruPLEX-FD-based protocols seem to be adequate solutions for exome sequencing of low input samples.
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Registered trials
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