منابع مشابه
Pitfalls of haplotype phasing from amplicon-based long-read sequencing.
The long-read sequencers from Pacific Bioscience (PacBio) and Oxford Nanopore Technologies (ONT) offer the opportunity to phase mutations multiple kilobases apart directly from sequencing reads. In this study, we used long-range PCR with ONT and PacBio sequencing to phase two variants 9 kb apart in the RET gene. We also re-analysed data from a recent paper which had apparently successfully used...
متن کاملImproved OTU-picking using long-read 16S rRNA gene amplicon sequencing and generic hierarchical clustering
BACKGROUND High-throughput bacterial 16S rRNA gene sequencing followed by clustering of short sequences into operational taxonomic units (OTUs) is widely used for microbiome profiling. However, clustering of short 16S rRNA gene reads into biologically meaningful OTUs is challenging, in part because nucleotide variation along the 16S rRNA gene is only partially captured by short reads. The recen...
متن کاملErratum to: Improved OTU-picking using long-read 16S rRNA gene amplicon sequencing and generic hierarchical clustering
Acknowledgements This work was funded by NIDDK: 1K01DK094986-01(JH), New York Crohn’s Foundation (IP), Helmsley Foundation (IP), and the Chemotherapy Foundation (SHI). We thank the support from the genomics core facility for the library preparation and sequencing service and the computational resources provided by the Department of Scientific Computing at the Icahn School of Medicine at Mount S...
متن کاملImproving PacBio Long Read Accuracy by Short Read Alignment
The recent development of third generation sequencing (TGS) generates much longer reads than second generation sequencing (SGS) and thus provides a chance to solve problems that are difficult to study through SGS alone. However, higher raw read error rates are an intrinsic drawback in most TGS technologies. Here we present a computational method, LSC, to perform error correction of TGS long rea...
متن کاملDUDE-Seq: Fast, flexible, and robust denoising for targeted amplicon sequencing
We consider the correction of errors from nucleotide sequences produced by next-generation targeted amplicon sequencing. The next-generation sequencing (NGS) platforms can provide a great deal of sequencing data thanks to their high throughput, but the associated error rates often tend to be high. Denoising in high-throughput sequencing has thus become a crucial process for boosting the reliabi...
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ژورنال
عنوان ژورنال: Nucleic Acids Research
سال: 2019
ISSN: 0305-1048,1362-4962
DOI: 10.1093/nar/gkz657