Article

Using pangenome variation graphs to improve mutation detection in a large DNA virus

2025-11-27

Abstract excerpt

Accurately quantifying viral genetic diversity is essential for understanding pathogen evolution, transmission, and emergence. However, standard approaches that map sequencing reads to a single linear reference genome introduce substantial reference bias, particularly for samples that are divergent, recombinant, or belong to rare lineages. Pangenome variation graphs (PVGs) mitigate this issue by representing multi...

Topics

Open a Topic to create a Post that cites this publication.

Identifiers and source

Literature Corpus work: 303b9eca-9f7f-582c-ac23-356785dabc68
DOI: 10.1101/2025.11.26.690900

Open publication

Related research

Semantic proximity does not establish scientific evidence.

Click a neighbor to travelStep 1 · 12 closest

Using pangenome variation graphs to improve mutation detection in a large DNA virusDOI 10.1101/2025.11.26.690900Read

Using pangenome variation graphs to improve mutation detection in a large DNA virus.Semantic proximity Read

Approaches to Studying Viral Pangenome Variation Graphs.Semantic proximity Read

Insights into goatpox virus and sheeppox virus genomes from pangenome graphsSemantic proximity Read

Insights into goatpox virus and sheeppox virus genomes from pangenome graphsSemantic proximity Read

PanVariants: Best Practice for Pangenome-based Variant Calling Pipeline and FrameworkSemantic proximity Read

SVPG: A pangenome-based structural variant detection approach and rapid augmentation of pangenome graphs with new samplesSemantic proximity Read

Accounting for Defective Viral Genomes in viral consensus genome reconstruction, application to influenza virus.Semantic proximity Read

Genomic deletions and rearrangements in monkeypox virus from the 2022 outbreak, USASemantic proximity Read

Evolutionary Variation of Poxvirus Genome ArchitectureSemantic proximity Read

Sequence variation aware genome references and read mapping with the variation graph toolkitSemantic proximity Read

Rapid Identification of Relevant Microbial Strains by Identifying Multiple Marker Single Nucleotide Polymorphisms via Amplicon Sequencing: Epidemic Monkeypox Virus as a Proof of Concept.Semantic proximity Read

Rapid, accurate long- and short-read mapping to large pangenome graphs with vg GiraffeSemantic proximity Read