A simple, single-tube overlapping amplicon-targeted Illumina sequencing assay. [PDF]
PLoS ONE, 2023 Targeted amplicon sequencing to identify pathogens, resistance-conferring mutations, and strain types is an important tool in diagnosing and treating infections. However, due to the short read limitations of Illumina sequencing, many applications require
Jason D Limberis +3 more
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Sequencing error profiles of Illumina sequencing instruments. [PDF]
NAR Genom Bioinform, 2021 Abstract Sequencing technology has achieved great advances in the past decade. Studies have previously shown the quality of specific instruments in controlled conditions. Here, we developed a method able to retroactively determine the error rate of most public sequencing datasets.
Stoler N, Nekrutenko A.
europepmc +4 more sources
ReSeq simulates realistic Illumina high-throughput sequencing data [PDF]
Genome Biology, 2021 In high-throughput sequencing data, performance comparisons between computational tools are essential for making informed decisions at each step of a project.
Stephan Schmeing, Mark D. Robinson
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Plant Sequence Capture Optimised for Illumina Sequencing
Bio-Protocol, 2014 Plant Sequence Capture is used for targeted resequencing of whole exomes (all exons of a genome) of complex genomes e.g. barley and its relatives (Mascher et al., 2013).
Axel Himmelbach +2 more
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Direct comparison of clear DX Nanopore and Illumina sequencing of SARS-CoV-2 [PDF]
Microbiology SpectrumThere are limited data directly comparing SARS-CoV-2 sequencing methods using two major commercial approaches, Oxford Nanopore Technologies Clear DX (ONTDX) and Illumina.
Wesley Hottel +13 more
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Systematic Comparison of Nanopore and Illumina Sequencing for the Detection of Plant Viruses and Viroids Using Total RNA Sequencing Approach [PDF]
Frontiers in Microbiology, 2022 High-throughput sequencing (HTS) has become an important tool for plant virus detection and discovery. Nanopore sequencing has been rapidly developing in the recent years and offers new possibilities for fast diagnostic applications of HTS.
Anja Pecman +7 more
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Adapterama II: universal amplicon sequencing on Illumina platforms (TaggiMatrix) [PDF]
PeerJ, 2019 Next-generation sequencing (NGS) of amplicons is used in a wide variety of contexts. In many cases, NGS amplicon sequencing remains overly expensive and inflexible, with library preparation strategies relying upon the fusion of locus-specific primers to ...
Travis C. Glenn +26 more
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Reliable variant calling during runtime of Illumina sequencing. [PDF]
Sci Rep, 2019 AbstractThe sequential paradigm of data acquisition and analysis in next-generation sequencing leads to high turnaround times for the generation of interpretable results. We combined a novel real-time read mapping algorithm with fast variant calling to obtain reliable variant calls still during the sequencing process.
Loka TP, Tausch SH, Renard BY.
europepmc +4 more sources
Optimization of enzymatic fragmentation is crucial to maximize genome coverage: a comparison of library preparation methods for Illumina sequencing. [PDF]
BMC Genomics, 2022 Ribarska T +3 more
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Intra-genomic rRNA gene variability of Nassellaria and Spumellaria (Rhizaria, Radiolaria) assessed by Sanger, MinION and Illumina sequencing. [PDF]
Environ Microbiol, 2022 Sandin MM, Romac S, Not F.
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