ArticleNature communications2016
Fast and sensitive mapping of nanopore sequencing reads with GraphMap.
Article in Nature communications, 2016. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 194 papers.
What it found
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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
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Who cites it
194 citing papers in PubMed, 426 citations in OpenAlex.
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- The sequence alignment problem: boundary conditions as the unifying principle.Briefings in bioinformatics · 2026Review
- NanoVar: a comprehensive workflow for structural variant detection to uncover the genome's hidden patterns.Nature protocols · 2026Review
- Regenerative base editing enables deep lineage recording.bioRxiv : the preprint server for biology · 2026Article
- Ab initio detection of multiple epitranscriptomic modifications from Oxford nanopore technology direct RNA sequencing data.Briefings in bioinformatics · 2026Article
- Adaptive laboratory evolution of maltose utilization in wild Irish isolates of Saccharomyces eubayanus.FEMS yeast research · 2026Article
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- Comparing Genome Sequencing Methods to Reconstruct the Spread of Piscine Myocarditis Virus in Ireland.Journal of fish diseases · 2025Article
- Accurate, Scalable Structural Variant Genotyping in Complex Genomes at Population Scales.Molecular biology and evolution · 2025Article
- A systematic benchmark of Nanopore long-read RNA sequencing for transcript-level analysis in human cell lines.Nature methods · 2025Article
- Impact of Alignments on the Accuracy of Protein Subcellular Localization Predictions.Proteins · 2025Article
- Benchmarking, detection, and genotyping of structural variants in a population of whole-genome assemblies using the SVGAP pipeline.bioRxiv : the preprint server for biology · 2025Article
- Taming large-scale genomic analyses via sparsified genomics.Nature communications · 2025Article
- Comprehensive analysis of the multi-rings mitochondrial genome of Populus tomentosa.BMC genomics · 2025Article
- Nanopore sequencing in veterinary medicine: from concepts to clinical applications.Frontiers in cellular and infection microbiology · 2025Review
- Custom barcoded primers for influenza A nanopore sequencing: enhanced performance with reduced preparation time.Frontiers in cellular and infection microbiology · 2025Article
134 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
6 authors at 5 institutions in 3 countries.
Funding
No grant is acknowledged in the PubMed record.
Abstract
Realizing the democratic promise of nanopore sequencing requires the development of new bioinformatics approaches to deal with its specific error characteristics. Here we present GraphMap, a mapping algorithm designed to analyse nanopore sequencing reads, which progressively refines candidate alignments to robustly handle potentially high-error rates and a fast graph traversal to align long reads with speed and high precision (>95%). Evaluation on MinION sequencing data sets against short- and long-read mappers indicates that GraphMap increases mapping sensitivity by 10-80% and maps >95% of bases. GraphMap alignments enabled single-nucleotide variant calling on the human genome with increased sensitivity (15%) over the next best mapper, precise detection of structural variants from length 100 bp to 4 kbp, and species and strain-specific identification of pathogens using MinION reads. GraphMap is available open source under the MIT license at https://github.com/isovic/graphmap.
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Registered trials
Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.