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Shotgun metagenome data of a defined mock community using Oxford Nanopore, PacBio and Illumina technologies [PDF]
Scientific Data, 2019 Metagenomic sequence data from defined mock communities is crucial for the assessment of sequencing platform performance and downstream analyses, including assembly, binning and taxonomic assignment.
Alison E Murray +2 more
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Trimmomatic: a flexible trimmer for Illumina sequence data [PDF]
Bioinformatics, 2014 Abstract Motivation: Although many next-generation sequencing (NGS) read preprocessing tools already existed, we could not find any tool or combination of tools that met our requirements in terms of flexibility, correct handling of paired-end data and high performance.
Bolger, A. M., Lohse, M., Usadel, Björn
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The Illumina Sequencing Protocol and the NovaSeq 6000 System
2021The NovaSeq 6000 is a sequencing platform from Illumina that enables the sequencing of short reads with an output up to 6 Tb. The NovaSeq 6000 uses the typical Illumina sequencing workflow based on library preparation, cluster generation by in situ amplification, and sequencing by synthesis. Flexibility is one of the major features of the NovaSeq 6000.
Modi A., Vai S., Caramelli D., Lari M.
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A large genome center's improvements to the Illumina sequencing system [PDF]
Nature Methods, 2008 The Wellcome Trust Sanger Institute is one of the world's largest genome centers, and a substantial amount of our sequencing is performed with 'next-generation' massively parallel sequencing technologies: in June 2008 the quantity of purity-filtered sequence data generated by our Genome Analyzer (Illumina) platforms reached 1 terabase, and our average ...
Aylwyn Scally, Richard Durbin
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ANALYSIS OF CONTEXT-DEPENDENT ERRORS FOR ILLUMINA SEQUENCING
Journal of Bioinformatics and Computational Biology, 2012The new generation of short-read sequencing technologies requires reliable measures of data quality. Such measures are especially important for variant calling. However, in the particular case of SNP calling, a great number of false-positive SNPs may be obtained. One needs to distinguish putative SNPs from sequencing or other errors. We found that not
Tom Skelly +10 more
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Illumina Sequencing of Bisulfite-Converted DNA Libraries
Cold Spring Harbor Protocols, 2016Here we describe a standard MethylC-seq protocol using single-read sequencing on an Illumina Genome Analyzer II platform. The protocol involves ligation of methylated sequencing adaptors to sonicated genomic DNA, gel purification, sodium bisulfite conversion, polymerase chain reaction (PCR) amplification, and sequencing.
Qin Yan +2 more
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Multiplex Illumina Sequencing Using DNA Barcoding
Current Protocols in Molecular Biology, 2013AbstractThe amount of sequence obtained by modern sequencing machines greatly exceeds the sequencing depth requirements of many experiments, especially those involving organisms with small genomes. In the interest of economy and efficiency, various strategies have been developed for multiplexing, in which samples are uniquely tagged with short ...
Yi Jin, Zarmik Moqtaderi, Koon Ho Wong
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Comparison between MGI and Illumina sequencing platforms for whole genome sequencing
Genes & Genomics, 2021Illumina next generation sequencing (NGS) systems are the major sequencing platform in worldwide next-generation sequencing market. On the other hand, MGI Tech launched a series of new NGS equipment that promises to deliver high-quality sequencing data faster and at lower prices than Illumina's sequencing instruments.In this study, we compared the ...
Sung-Ho Goh +6 more
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The Illumina-Solexa Sequencing Protocol for Bacterial Genomes
2015Based on reversible dye-terminators technology, the Illumina-solexa sequencing platform enables rapid sequencing-by-synthesis (SBS) of large DNA stretches spanning entire genomes, with the latest instruments capable of producing hundreds of gigabases of data in a single sequencing run.
Lei Cheng, Hai Wang, Zhenfei Hu
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Illumina Sequencing Library Preparation for Highly Multiplexed Target Capture and Sequencing
Cold Spring Harbor Protocols, 2010INTRODUCTIONThe large amount of DNA sequence data generated by high-throughput sequencing technologies often allows multiple samples to be sequenced in parallel on a single sequencing run. This is particularly true if subsets of the genome are studied rather than complete genomes.
Martin Kircher, Matthias Meyer
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