ArticleGenome biology2022
PerSVade: personalized structural variant detection in any species of interest.
Article in Genome biology, 2022. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 25 papers.
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Who cites it
25 citing papers in PubMed.
- BioTester: an AI-driven automated testing framework for identifying potential quality risks in bioinformatics software.Briefings in bioinformatics · 2026Article
- Urosepsis by multidrug-resistantmBio · 2026Article
- Profound cell wall remodeling inMicrobiology spectrum · 2026Article
- WeavePop: a bioinformatics workflow to explore and analyze genomic variants of eukaryotic populations.G3 (Bethesda, Md.) · 2026Article
- Integrative multi-omics analysis widens annotation and functional insights into long non-coding RNAs of Arabidopsis thaliana.Biology direct · 2026Article
- Six-month surveillance ofFrontiers in cellular and infection microbiology · 2026Article
- OctopuSV and TentacleSV: a one-stop toolkit for multi-sample, cross-platform structural variant comparison and analysis.Bioinformatics (Oxford, England) · 2025Article
- Article
- MRDadaptis: self-adaptive parameter configuration enhances minimal residual disease detection in heterogeneous ctDNA samples.Briefings in bioinformatics · 2025Article
- Multi-Omics Analysis of Experimentally Evolved Candida auris Isolates Reveals Modulation of Sterols, Sphingolipids, and Oxidative Stress in Acquired Amphotericin B Resistance.Molecular microbiology · 2025Article
- The role of gene copy number variation in antimicrobial resistance in human fungal pathogens.npj antimicrobials and resistance · 2025Review
- Insights into the origin, hybridisation and adaptation of Candida metapsilosis hybrid pathogens.PLoS pathogens · 2025Article
- Chromosome level assemblies of Nakaseomyces (Candida) bracarensis uncover two distinct clades and define its adhesin repertoire.BMC genomics · 2024Article
- Collateral sensitivity counteracts the evolution of antifungal drug resistance in Candida auris.Nature microbiology · 2024Article
- Corrected and republished from: "Extracellular Vesicle Formation inInfection and immunity · 2024Article
- Calling Structural Variants with Confidence from Short-Read Data in Wild Bird Populations.Genome biology and evolution · 2024Article
- Genomics of the expanding pine pathogenmSystems · 2024Article
- Long-term stability of acquired drug resistance and resistance associated mutations in the fungal pathogenFrontiers in cellular and infection microbiology · 2024Article
- Recent gene selection and drug resistance underscore clinical adaptation across Candida species.Nature microbiology · 2024Article
- Origin of fungal hybrids with pathogenic potential from warm seawater environments.Nature communications · 2023Article
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Authors and funding
2 authors.
Funding
No grant is acknowledged in the PubMed record.
Abstract
Structural variants (SVs) underlie genomic variation but are often overlooked due to difficult detection from short reads. Most algorithms have been tested on humans, and it remains unclear how applicable they are in other organisms. To solve this, we develop perSVade (personalized structural variation detection), a sample-tailored pipeline that provides optimally called SVs and their inferred accuracy, as well as small and copy number variants. PerSVade increases SV calling accuracy on a benchmark of six eukaryotes. We find no universal set of optimal parameters, underscoring the need for sample-specific parameter optimization. PerSVade will facilitate SV detection and study across diverse organisms.
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