ArticleScientific reports2016
Benchmarking of the Oxford Nanopore MinION sequencing for quantitative and qualitative assessment of cDNA populations.
Article in Scientific reports, 2016. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 90 papers.
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Who cites it
90 citing papers in PubMed.
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- The impact of transcriptome assembly algorithms on downstream quantification in RNA-seq data analysis.Briefings in bioinformatics · 2026Article
- Low power reprogrammable DNA basecaller with an efficient HMM accelerator for real time nanopore sequencing.Scientific reports · 2026Article
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- From Genomic Fossils to Functional Elements: The Evolving Story of Pseudogenes.Advanced genetics (Hoboken, N.J.) · 2025Review
- Real-time genomic characterization of pediatric acute leukemia using adaptive sampling.Leukemia · 2025Article
- Germline mosaicism in TCF20-associated neurodevelopmental disorders: a case study and literature review.Journal of human genetics · 2025Review
- Developing an insert to protect large DNA molecules during cell lysis.BioTechniques · 2025Article
- Real-time genomic characterization of pediatric acute leukemia using adaptive sampling.bioRxiv : the preprint server for biology · 2025Article
- A species-level identification pipeline for human gut microbiota based on the V3-V4 regions of 16S rRNA.Frontiers in microbiology · 2025Article
- PHARE: a bioinformatics pipeline for compositional profiling of multiclonal Plasmodium falciparum infections from long-read Nanopore sequencing data.The Journal of antimicrobial chemotherapy · 2024Article
- Detection ofFoods (Basel, Switzerland) · 2024Article
- Adaptable and comprehensive approaches for long-read nanopore sequencing of polyadenylated and non-polyadenylated RNAs.Frontiers in genetics · 2024Article
- Merging short and stranded long reads improves transcript assembly.PLoS computational biology · 2023Article
- Full-length transcript alterations in human bronchial epithelial cells withLife science alliance · 2023Article
- Nanopore sequencing unveils the complexity of the cold-activated murine brown adipose tissue transcriptome.iScience · 2023Article
- Applications of long-read sequencing to Mendelian genetics.Genome medicine · 2023Review
- Single Nematode Transcriptomic Analysis, Using Long-Read Technology, Reveals Two Novel Virulence Gene Candidates in the Soybean Cyst Nematode,International journal of molecular sciences · 2023Article
30 more citing papers are in PubMed but not listed here.
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5 authors.
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Abstract
To assess the performance of the Oxford Nanopore Technologies MinION sequencing platform, cDNAs from the External RNA Controls Consortium (ERCC) RNA Spike-In mix were sequenced. This mix mimics mammalian mRNA species and consists of 92 polyadenylated transcripts with known concentration. cDNA libraries were generated using a template switching protocol to facilitate the direct comparison between different sequencing platforms. The MinION performance was assessed for its ability to sequence the cDNAs directly with good accuracy in terms of abundance and full length. The abundance of the ERCC cDNA molecules sequenced by MinION agreed with their expected concentration. No length or GC content bias was observed. The majority of cDNAs were sequenced as full length. Additionally, a complex cDNA population derived from a human HEK-293 cell line was sequenced on an Illumina HiSeq 2500, PacBio RS II and ONT MinION platforms. We observed that there was a good agreement in the measured cDNA abundance between PacBio RS II and ONT MinION (rpearson = 0.82, isoforms with length more than 700bp) and between Illumina HiSeq 2500 and ONT MinION (rpearson = 0.75). This indicates that the ONT MinION can sequence quantitatively both long and short full length cDNA molecules.
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