A systematic benchmark of Nanopore long-read RNA sequencing for transcript-level analysis in human cell lines.

What it found

Each row is one number read from the abstract, on the scale the paper reported it, with its interval. Left of the dashed line favours the treatment, right favours the comparator. Under each row is the sentence it came from. New to these charts? A ten-minute tutorial.

The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.

The trial behind it

Trials whose registry record cites this paper, or whose number appears in the abstract. A trial that started after this paper was published is citing it as background, not reporting it.

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Who cites it

126 citing papers in PubMed, 2 syntheses or guidelines pooled it.

1. Systematic review and meta-analysis of bulk RNAseq studies in human Alzheimer's disease brain tissue.Alzheimer's & dementia : the journal of the Alzheimer's Association · 2025
   Pooled it
2. Post-transcriptional control drives Aurora kinase A expression in human cancers.PloS one · 2024
   Pooled it
3. NanoTS: a deep learning tool for accurate SNP calling in nanopore long-read transcriptome data.Nature methods · 2026
   Article
4. Long-read transcriptome analysis using IsoRanker for identifying pathogenic variants in Mendelian conditions.American journal of human genetics · 2026
   Article
5. A systematic benchmark of bioinformatics methods for single-cell and spatial RNA-seq nanopore long reads data.NAR genomics and bioinformatics · 2026
   Article
6. Handling biological replicates in long-read RNA sequencing data by joining or not joining.Nature communications · 2026
   Article
7. Benchmarking RNA-seq with the Quartet and MAQC reference materials to establish best practices for accurate alternative splicing analysis.Nature communications · 2026
   Article
8. SpliSync: Genomic language model-driven splice site correction of long RNA sequencing reads.bioRxiv : the preprint server for biology · 2026
   Article
9. Epitranscriptomic Analysis of A-to-I RNA Editing and mInternational journal of molecular sciences · 2026
   Review
10. Disease-associated genetic variants can cause missense effects in tissue-specific protein isoforms.Nature communications · 2026
    Article
11. Integrating mass spectrometry with Nanopore direct RNA sequencing forbioRxiv : the preprint server for biology · 2026
    Article
12. NanoSimFormer: an end-to-end transformer-based nanopore signal simulator with basecaller guidance.Bioinformatics (Oxford, England) · 2026
    Article
13. Nanopore direct RNA sequencing and the epitranscriptome: Advances in mapping native RNA landscapes.iMeta · 2026
    Review
14. Transcriptome Profiling of Leaves and Roots from Rooibos (Plants (Basel, Switzerland) · 2026
    Article
15. An rRNA-depleted full-length transcriptome strategy using nanopore sequencing for identification of novel lncRNA isoforms.Communications biology · 2026
    Article
16. Whole-genome sequencing of severe fever with thrombocytopenia syndrome virus using nanopore adaptive sampling.Archives of virology · 2026
    Article
17. Benchmarking computational methods for identifying and quantifying polyadenylation sites from 3' tag-based single-cell RNA-seq data.Nucleic acids research · 2026
    Article
18. Efficient reconstruction of full-length RNA isoforms using ISAtools and large-scale PacBio circular consensus sequencing data.Briefings in bioinformatics · 2026
    Article
19. An intronic variant in Ferredoxin Reductase (FDXR) creates a cryptic exon in Quarter Horses with Equine Juvenile Spinocerebellar Ataxia.PLoS genetics · 2026
    Article
20. Machine learning-advanced hydrogel-based transcription-coupled positive-feedback CRISPR/Cas13a analysis for novel microRNA signatures in differential diagnosis of non-small cell lung cancer.Journal of nanobiotechnology · 2026
    Article

66 more citing papers are in PubMed but not listed here.

Corrections and comments

PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.

Authors and funding

50 authors.

Funding

Abstract

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