Comparison of Next-Generation Sequencing Systems

By Lin Liu, Yinhu Li, Siliang Li, Ni Hu, Yimin He, Raymond S. Pong, Danni Lin, Lihua Lu, Maggie Law. Journal of Biomedicine and Biotechnology, 2012

1,646 citations recorded by the source corpus.

With fast development and wide applications of next-generation sequencing (NGS) technologies, genomic sequence information is within reach to aid the achievement of goals to decode life mysteries, make better crops, detect pathogens, and improve life qualities. NGS systems are typically represented by SOLiD/Ion Torrent PGM from Life Sciences, Genome Analyzer/HiSeq 2000/MiSeq from Illumina, and GS FLX Titanium/GS Junior from Roche. Beijing Genomics Institute (BGI), which possesses the world's biggest sequencing capacity, has multiple NGS systems including 137 HiSeq 2000, 27 SOLiD, one Ion Torrent PGM, one MiSeq, and one 454 sequencer. We have accumulated extensive experience in sample handling, sequencing, and bioinformatics analysis. In this paper, technologies of these systems are reviewed, and first-hand data from extensive experience is summarized and analyzed to discuss the advantages and specifics associated with each sequencing system. At last, applications of NGS are summarized.

Subfields: Biomedical Engineering, Electrical and Electronic Engineering, Molecular Biology

View Paper: https://www.semanticscholar.org/paper/023a218771400f4e3d150609d81f9ecd7c38d85d

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Citations in the corpus

Next-Generation Sequencing — An Overview of the History, Tools, and “Omic” Applications (2016, methodology): “However, a comparison of three bench-top sequencers, the Roche GS Junior, the Illumina MiSeq, and Ion PGM, revealed large differences in cost, sequence capacity, and performance outcomes of genome depth, stability of coverage and read lengths, and quality for sequencing bacterial genomes [54, 93].”
High-Throughput Sequencing Technologies (2015, background): “Insertions and deletions (indels) are the most common error types (Liu et al., 2012).”
Transcriptomics technologies (2017, methodology): “Sequencing technology platforms commonly used for RNA-Seq [72][73].”
PacBio Sequencing and Its Applications (2015, neutral): “Its relative performance compared to ﬁrst, second, and third generation sequencing platforms is shown in Table 1 [5,9,12,14–27].”
Taxonomic use of DNA G+C content and DNA-DNA hybridization in the genomic age. (2014, background): “The high coverage obtained with modern sequencing techniques yields high sequence accuracy (Liu et al., 2012; Mavromatis et al., 2012), which in turn indicates that counting cytosines and guanines from genome sequences is more accurate than the conventional methods.”
De novo transcript sequence reconstruction from RNA-Seq: reference generation and analysis with Trinity (2013, background): “Improvements in long-read technologies 29 should help address these challenges.”
Generations of Sequencing Technologies: From First to Next Generation (2017, methodology): “The preparation of the sample is very fast, it takes 4 to 6 hours instead of days [16].”
Genes and mutations causing retinitis pigmentosa (2013, neutral): “There are several NGS methods and numerous distinct applications (36, 37).”
Microbiome definition re-visited: old concepts and new challenges (2020, background): “cient methods for addressing the functional potential of individual microorganisms as well as of whole communities in their natural habitats [36, 37].”
Adaptive laboratory evolution – principles and applications for biotechnology (2013, background): “Moreover, due to rather new technologies, including transcriptional profiling [30] and massive next-generation DNA sequencing (NGS) [31,32], phenotype-genotype correlations can be easily obtained by whole genome resequencing (WGS).”
Microbial Biodiversity and Bioremediation Assessment Through Omics Approaches (2020, methodology): “Frederick Sanger and Allen Maxam—Walter Gilbert sequencing techniques were categorized as the first generation DNA sequencing methods (Liu et al., 2012).”