ArticleGenome biology2021
phasebook: haplotype-aware de novo assembly of diploid genomes from long reads.
Article in Genome biology, 2021. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 33 papers.
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Who cites it
33 citing papers in PubMed.
- MGA: a tool for haplotype-mixed assembly of long and accurate reads.Genome biology · 2026Article
- Article
- Challenges in the detection and assembly of virus integration structures in human genomes.Frontiers in oncology · 2026Review
- Interlaboratory evaluation of high molecular weight DNA extraction methods for long-read sequencing and structural variant analysis.BMC genomics · 2025Article
- Repeat and haplotype aware error correction in nanopore sequencing reads with DeChat.Communications biology · 2024Article
- DeepHapNet: a haplotype assembly method based on RetNet and deep spectral clustering.Briefings in bioinformatics · 2024Article
- Chromosome-level subgenome-aware de novo assembly provides insight intoGenome research · 2024Article
- Graphasing: phasing diploid genome assembly graphs with single-cell strand sequencing.Genome biology · 2024Article
- Pangenome Identification and Analysis of Terpene Synthase Gene Family Members inInternational journal of molecular sciences · 2024Article
- GCphase: an SNP phasing method using a graph partition and error correction algorithm.BMC bioinformatics · 2024Article
- Rockfish: A transformer-based model for accurate 5-methylcytosine prediction from nanopore sequencing.Nature communications · 2024Article
- Generating barcodes for nanopore sequencing data with PRO.Fundamental research · 2024Article
- Phasing Diploid Genome Assembly Graphs with Single-Cell Strand Sequencing.bioRxiv : the preprint server for biology · 2024Article
- Scalable telomere-to-telomere assembly for diploid and polyploid genomes with double graph.Nature methods · 2024Article
- Phased nanopore assembly with Shasta and modular graph phasing with GFAse.Genome research · 2024Article
- KSNP: a fast de Bruijn graph-based haplotyping tool approaching data-in time cost.Nature communications · 2024Article
- Constructing telomere-to-telomere diploid genome by polishing haploid nanopore-based assembly.Nature methods · 2024Article
- Comprehensive assessment of 11 de novo HiFi assemblers on complex eukaryotic genomes and metagenomes.Genome research · 2024Article
- Chromosome-level Subgenome-awarebioRxiv : the preprint server for biology · 2024Article
- Advancements in HLA Typing Techniques and Their Impact on Transplantation Medicine.Medical principles and practice : international journal of the Kuwait University, Health Science Centre · 2024Review
Corrections and comments
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Authors and funding
3 authors.
Funding
No grant is acknowledged in the PubMed record.
Abstract
Haplotype-aware diploid genome assembly is crucial in genomics, precision medicine, and many other disciplines. Long-read sequencing technologies have greatly improved genome assembly. However, current long-read assemblers are either reference based, so introduce biases, or fail to capture the haplotype diversity of diploid genomes. We present phasebook, a de novo approach for reconstructing the haplotypes of diploid genomes from long reads. phasebook outperforms other approaches in terms of haplotype coverage by large margins, in addition to achieving competitive performance in terms of assembly errors and assembly contiguity.
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