ArticlePlant methods2018
Comparative performance of the BGISEQ-500 and Illumina HiSeq4000 sequencing platforms for transcriptome analysis in plants.
Article in Plant methods, 2018. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 66 papers.
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66 citing papers in PubMed.
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- A transcriptomic profiling across tissues, developmental stages, and types of Nicotiana tabacum.Scientific data · 2025Article
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- Beyond the base pairs: comparative genome-wide DNA methylation profiling across sequencing technologies.Briefings in bioinformatics · 2024Article
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- Full-Length Transcriptome Sequencing and RNA-Seq Analysis Offer Insights into Terpenoid Biosynthesis inGenes · 2024Article
- Identification and Characterization of a Plant Endophytic FungusJournal of fungi (Basel, Switzerland) · 2024Article
- Neuronal NPR-15 modulates molecular and behavioral immune responses via the amphid sensory neuron-intestinal axis inbioRxiv : the preprint server for biology · 2024Article
- Comparison of the DNBSEQ platform and Illumina HiSeq 2000 for bacterial genome assembly.Scientific reports · 2024Article
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- Cancer treatment comes to age: from one-size-fits-all to next-generation sequencing (NGS) technologies.BioImpacts : BI · 2024Review
- Identification of male-fertility geneFrontiers in plant science · 2024Article
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- Soil conditions and the plant microbiome boost the accumulation of monoterpenes in the fruit of Citrus reticulata 'Chachi'.Microbiome · 2023Article
- Comparative transcriptomic analysis of Illumina and MGI next-generation sequencing platforms using RUNX3- and ZBTB46-instructed embryonic stem cells.Frontiers in genetics · 2023Article
6 more citing papers are in PubMed but not listed here.
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15 authors.
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Abstract
backgroundThe next-generation sequencing (NGS) technology has greatly facilitated genomic and transcriptomic studies, contributing significantly in expanding the current knowledge on genome and transcriptome. However, the continually evolving variety of sequencing platforms, protocols and analytical pipelines has led the research community to focus on cross-platform evaluation and standardization. As a NGS pioneer in China, the Beijing Genomics Institute (BGI) has announced its own NGS platform designated as BGISEQ-500, since 2016. The capability of this platform in large-scale DNA sequencing and small RNA analysis has been already evaluated. However, the comparative performance of BGISEQ-500 platform in transcriptome analysis remains yet to be elucidated. The Illumina series, a leading sequencing platform in China's sequencing market, would be a preferable reference to evaluate new platforms.
methodsTo this end, we describe a cross-platform comparative study between BGISEQ-500 and Illumina HiSeq4000 for analysis of
resultsThe results from the two platforms BGISEQ-500 and Illumina HiSeq4000 shared high concordance in both inter- (correlation, 0.88-0.93) and intra-platform (correlation, 0.95-0.98) comparison for gene quantification, identification of differentially expressed genes and alternative splicing events. However, the two platforms yielded highly variable interpretation results for single nucleotide polymorphism and insertion-deletion analysis.
conclusionThe present case study provides a comprehensive reference dataset to validate the capability of BGISEQ-500 enabling it to be established as a competitive and reliable platform in plant transcriptome analysis.
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