Hybrid metagenomic assembly enables high-resolution analysis of resistance determinants and mobile elements in human microbiomes
出版年份 2019 全文链接
标题
Hybrid metagenomic assembly enables high-resolution analysis of resistance determinants and mobile elements in human microbiomes
作者
关键词
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出版物
NATURE BIOTECHNOLOGY
Volume 37, Issue 8, Pages 937-944
出版商
Springer Science and Business Media LLC
发表日期
2019-07-30
DOI
10.1038/s41587-019-0191-2
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注意:仅列出部分参考文献,下载原文获取全部文献信息。- Extensive Unexplored Human Microbiome Diversity Revealed by Over 150,000 Genomes from Metagenomes Spanning Age, Geography, and Lifestyle
- (2019) Edoardo Pasolli et al. CELL
- Megaphages infect Prevotella and variants are widespread in gut microbiomes
- (2019) Audra E. Devoto et al. Nature Microbiology
- Nanopore sequencing and assembly of a human genome with ultra-long reads
- (2018) Miten Jain et al. NATURE BIOTECHNOLOGY
- High-quality genome sequences of uncultured microbes by assembly of read clouds
- (2018) Alex Bishara et al. NATURE BIOTECHNOLOGY
- metaSPAdes: a new versatile metagenomic assembler
- (2017) Sergey Nurk et al. GENOME RESEARCH
- Fast and accurate de novo genome assembly from long uncorrected reads
- (2017) Robert Vaser et al. GENOME RESEARCH
- Canu: scalable and accurate long-read assembly via adaptivek-mer weighting and repeat separation
- (2017) Sergey Koren et al. GENOME RESEARCH
- dRep: a tool for fast and accurate genomic comparisons that enables improved genome recovery from metagenomes through de-replication
- (2017) Matthew R Olm et al. ISME Journal
- Metagenomic binning and association of plasmids with bacterial host genomes using DNA methylation
- (2017) John Beaulaurier et al. NATURE BIOTECHNOLOGY
- Critical Assessment of Metagenome Interpretation—a benchmark of metagenomics software
- (2017) Alexander Sczyrba et al. NATURE METHODS
- Ménage à trois in the human gut: interactions between host, bacteria and phages
- (2017) Mohammadali Khan Mirzaei et al. NATURE REVIEWS MICROBIOLOGY
- Strain-resolved analysis of hospital rooms and infants reveals overlap between the human and room microbiome
- (2017) Brandon Brooks et al. Nature Communications
- Therapeutic options for carbapenem-resistant Enterobacteriaceae infections
- (2017) Enrico Maria Trecarichi et al. Virulence
- Unicycler: Resolving bacterial genome assemblies from short and long sequencing reads
- (2017) Ryan R. Wick et al. PLoS Computational Biology
- Metagenomics: The Next Culture-Independent Game Changer
- (2017) Jessica D. Forbes et al. Frontiers in Microbiology
- Plasmid Classification in an Era of Whole-Genome Sequencing: Application in Studies of Antibiotic Resistance Epidemiology
- (2017) Alex Orlek et al. Frontiers in Microbiology
- Bioinformatics strategies for taxonomy independent binning and visualization of sequences in shotgun metagenomics
- (2017) Karel Sedlar et al. Computational and Structural Biotechnology Journal
- Toward Accurate and Quantitative Comparative Metagenomics
- (2016) Stephen Nayfach et al. CELL
- Measurement of bacterial replication rates in microbial communities
- (2016) Christopher T Brown et al. NATURE BIOTECHNOLOGY
- Generation of genome-scale metabolic reconstructions for 773 members of the human gut microbiota
- (2016) Stefanía Magnúsdóttir et al. NATURE BIOTECHNOLOGY
- Fast and sensitive mapping of nanopore sequencing reads with GraphMap
- (2016) Ivan Sović et al. Nature Communications
- Improved metagenome assemblies and taxonomic binning using long-read circular consensus sequence data
- (2016) J. A. Frank et al. Scientific Reports
- Recovering complete and draft population genomes from metagenome datasets
- (2016) Naseer Sangwan et al. Microbiome
- MaxBin 2.0: an automated binning algorithm to recover genomes from multiple metagenomic datasets
- (2015) Yu-Wei Wu et al. BIOINFORMATICS
- hybridSPAdes: an algorithm for hybrid assembly of short and long reads
- (2015) Dmitry Antipov et al. BIOINFORMATICS
- MEGAHIT: an ultra-fast single-node solution for large and complex metagenomics assembly via succinct de Bruijn graph
- (2015) Dinghua Li et al. BIOINFORMATICS
- MetaQUAST: evaluation of metagenome assemblies
- (2015) Alla Mikheenko et al. BIOINFORMATICS
- Double- and multi-carbapenemase-producers: the excessively armored bacilli of the current decade
- (2015) G. Meletis et al. EUROPEAN JOURNAL OF CLINICAL MICROBIOLOGY & INFECTIOUS DISEASES
- CheckM: assessing the quality of microbial genomes recovered from isolates, single cells, and metagenomes
- (2015) Donovan H. Parks et al. GENOME RESEARCH
- Complete nitrification by Nitrospira bacteria
- (2015) Holger Daims et al. NATURE
- ConStrains identifies microbial strains in metagenomic datasets
- (2015) Chengwei Luo et al. NATURE BIOTECHNOLOGY
- Synthetic long-read sequencing reveals intraspecies diversity in the human microbiome
- (2015) Volodymyr Kuleshov et al. NATURE BIOTECHNOLOGY
- MetaPhlAn2 for enhanced metagenomic taxonomic profiling
- (2015) Duy Tin Truong et al. NATURE METHODS
- Treatment Options for Carbapenem-Resistant Enterobacteriaceae Infections
- (2015) H. J. Morrill et al. Open Forum Infectious Diseases
- Poretools: a toolkit for analyzing nanopore sequence data
- (2014) N. J. Loman et al. BIOINFORMATICS
- Metabolic pathways for the whole community
- (2014) Niels W Hanson et al. BMC GENOMICS
- Identification and assembly of genomes and genetic elements in complex metagenomic samples without using reference genomes
- (2014) H Bjørn Nielsen et al. NATURE BIOTECHNOLOGY
- Binning metagenomic contigs by coverage and composition
- (2014) Johannes Alneberg et al. NATURE METHODS
- ARG-ANNOT, a New Bioinformatic Tool To Discover Antibiotic Resistance Genes in Bacterial Genomes
- (2013) Sushim Kumar Gupta et al. ANTIMICROBIAL AGENTS AND CHEMOTHERAPY
- A Culture-Independent Sequence-Based Metagenomics Approach to the Investigation of an Outbreak of Shiga-Toxigenic Escherichia coli O104:H4
- (2013) Nicholas J. Loman et al. JAMA-JOURNAL OF THE AMERICAN MEDICAL ASSOCIATION
- The human microbiome as a reservoir of antimicrobial resistance
- (2013) John Penders et al. Frontiers in Microbiology
- IDBA-UD: a de novo assembler for single-cell and metagenomic sequencing data with highly uneven depth
- (2012) Y. Peng et al. BIOINFORMATICS
- Mapping single molecule sequencing reads using basic local alignment with successive refinement (BLASR): application and theory
- (2012) Mark J Chaisson et al. BMC BIOINFORMATICS
- The human microbiome: A hot spot of microbial horizontal gene transfer
- (2012) Li Liu et al. GENOMICS
- Hybrid error correction and de novo assembly of single-molecule sequencing reads
- (2012) Sergey Koren et al. NATURE BIOTECHNOLOGY
- Finding Biologically Accurate Clusterings in Hierarchical Tree Decompositions Using the Variation of Information
- (2010) Saket Navlakha et al. JOURNAL OF COMPUTATIONAL BIOLOGY
- New Algorithms and Methods to Estimate Maximum-Likelihood Phylogenies: Assessing the Performance of PhyML 3.0
- (2010) Stéphane Guindon et al. SYSTEMATIC BIOLOGY
- Human gut microbiome: the second genome of human body
- (2010) Baoli Zhu et al. Protein & Cell
- The RAST Server: Rapid Annotations using Subsystems Technology
- (2008) Ramy K Aziz et al. BMC GENOMICS
- Velvet: Algorithms for de novo short read assembly using de Bruijn graphs
- (2008) D. R. Zerbino et al. GENOME RESEARCH
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