ArticleJournal of computational biology : a journal of computational molecular cell biology2015
dipSPAdes: Assembler for Highly Polymorphic Diploid Genomes.
Article in Journal of computational biology : a journal of computational molecular cell biology, 2015. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 40 papers.
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Who cites it
40 citing papers in PubMed.
- MGA: a tool for haplotype-mixed assembly of long and accurate reads.Genome biology · 2026Article
- Uncovering the viral aetiology of undiagnosed acute febrile illness in Uganda using metagenomic sequencing.Nature communications · 2025Article
- Transposable Element Diversity and Activity Patterns in Neotropical Salamanders.Molecular biology and evolution · 2024Article
- Novel phylogenomic inference and 'Out of Asia' biogeography of cobras, coral snakes and their allies.Royal Society open science · 2024Article
- Filtration of Gene Trees From 9,000 Exons, Introns, and UCEs Disentangles Conflicting Phylogenomic Relationships in Tree Frogs (Hylidae).Genome biology and evolution · 2023Article
- Complete chloroplast genomes of three wild perennialFrontiers in plant science · 2023Article
- A target capture approach for phylogenomic analyses at multiple evolutionary timescales in rosewoods (Dalbergia spp.) and the legume family (Fabaceae).Molecular ecology resources · 2022Article
- Karyon: a computational framework for the diagnosis of hybrids, aneuploids, and other nonstandard architectures in genome assemblies.GigaScience · 2022Article
- Article
- Genome analysis of five recently described species of the CUG-Ser clade uncovers Candida theae as a new hybrid lineage with pathogenic potential in the Candida parapsilosis species complex.DNA research : an international journal for rapid publication of reports on genes and genomes · 2022Article
- Genome analysis of Candida subhashii reveals its hybrid nature and dual mitochondrial genome conformations.DNA research : an international journal for rapid publication of reports on genes and genomes · 2021Article
- Shared evolutionary footprints suggest mitochondrial oxidative damage underlies multiple complex I losses in fungi.Open biology · 2021Article
- Gigantic Genomes Provide Empirical Tests of Transposable Element Dynamics Models.Genomics, proteomics & bioinformatics · 2021Article
- Fungal evolution: cellular, genomic and metabolic complexity.Biological reviews of the Cambridge Philosophical Society · 2020Article
- Pathogenic Allodiploid Hybrids of Aspergillus Fungi.Current biology : CB · 2020Article
- The Complete Chloroplast Genome Sequencing and Comparative Analysis of Reed Canary Grass (Plants (Basel, Switzerland) · 2020Article
- Whole Genome Sequences of 23 Species from theG3 (Bethesda, Md.) · 2020Article
- HaploTypo: a variant-calling pipeline for phased genomes.Bioinformatics (Oxford, England) · 2020Article
- Metagenomic next-generation sequencing aids the diagnosis of viral infections in febrile returning travellers.The Journal of infection · 2019Article
- Coordinated host-pathogen transcriptional dynamics revealed using sorted subpopulations and single macrophages infected with Candida albicans.Nature communications · 2019Article
Corrections and comments
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Authors and funding
3 authors.
Funding
Abstract
While the number of sequenced diploid genomes have been steadily increasing in the last few years, assembly of highly polymorphic (HP) diploid genomes remains challenging. As a result, there is a shortage of tools for assembling HP genomes from the next generation sequencing (NGS) data. The initial approaches to assembling HP genomes were proposed in the pre-NGS era and are not well suited for NGS projects. To address this limitation, we developed the first de Bruijn graph assembler, dipSPAdes, for HP genomes that significantly improves on the state-of-the-art assemblers for HP diploid genomes.
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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.