One chromosome, one contig: complete microbial genomes from long-read sequencing and assembly.
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- Type
- review
- Published
- 2015-02-01
- Cited by
- 403
- References
- 85
- Access
- Open access
- OpenAlex
- https://openalex.org/W1982579644
- Semantic Scholar
- https://api.semanticscholar.org/CorpusID:173123
Keywords
Contig, Biology, Genome, Sequence assembly, Computational biology
References
- PBSIM: PacBio reads simulator - toward accurate genome assembly
- Reducing assembly complexity of microbial genomes with single-molecule sequencing
- The second Oxford Nanopore read ever published
- Next Generation Sequence Assembly with AMOS
- Real-time DNA sequencing from single polymerase molecules.
- Assembling large genomes with single-molecule sequencing and locality-sensitive hashing
- A whole-genome assembly of Drosophila.
- DBG2OLC: Efficient Assembly of Large Genomes Using the Compressed Overlap Graph
- ABySS: a parallel assembler for short read sequence data.
- Characterizing and measuring bias in sequence data
- Assembly Algorithms for Next-Generation Sequencing Data
- Multiple populations of artemisinin-resistant Plasmodium falciparum in Cambodia
- Mind the Gap: Upgrading Genomes with Pacific Biosciences RS Long-Read Sequencing Technology
- High-resolution human genome structure by single-molecule analysis
- Pilon: An Integrated Tool for Comprehensive Microbial Variant Detection and Genome Assembly Improvement
- Nonhybrid, finished microbial genome assemblies from long-read SMRT sequencing data
- Evolutionary pathway to increased virulence and epidemic group A Streptococcus disease derived from 3,615 genome sequences
- Evolution and transmission of drug resistant tuberculosis in a Russian population
- Whole-genome haplotype reconstruction using proximity-ligation and shotgun sequencing
- Genomic Analyses of Clonal Isolates Provide Clues to the Evolution of Streptococcus pneumoniae
Cited by
- Misguided phylogenetic comparisons using DGGE excised bands may contaminate public sequence databases.
- Improved metagenome assemblies and taxonomic binning using long-read circular consensus sequence data
- Genome-Wide Biases in the Rate and Molecular Spectrum of Spontaneous Mutations in Vibrio cholerae and Vibrio fischeri
- A Primer on Infectious Disease Bacterial Genomics
- A complete bacterial genome assembled de novo using only nanopore sequencing data
- Best practices for evaluating single nucleotide variant calling methods for microbial genomics
- Assembling large genomes with single-molecule sequencing and locality-sensitive hashing
- Microbiology and Molecular Biology Tools for Biogas Process Analysis, Diagnosis and Control.
- DBG2OLC: Efficient Assembly of Large Genomes Using the Compressed Overlap Graph
- Single-molecule sequencing reveals the molecular basis of multidrug-resistance in ST772 methicillin-resistant Staphylococcus aureus
- Algorithms and statistical models for scaffolding contig assemblies and detecting structural variants using read pair data
- Denoising DNA deep sequencing data—high-throughput sequencing errors and their correction
- Using linkage maps to correct and scaffold de novo genome assemblies: methods, challenges, and computational tools
- Taking the pseudo out of pseudogenes.
- Big Data: Astronomical or Genomical?
- A transferable plasticity region in Campylobacter coli allows isolates of an otherwise non‐glycolytic food‐borne pathogen to catabolize glucose
- Whole-Genome Sequencing in Outbreak Analysis
- Is the whole greater than the sum of its parts? De novo assembly strategies for bacterial genomes based on paired-end sequencing
- LINKS: Scaffolding genome assemblies with kilobase-long nanopore reads
- Accelerating Discovery and Functional Analysis of Small RNAs with New Technologies.
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