Assessment of metagenomic workflows using a newly constructed human gut microbiome mock community
出版年份 2023 全文链接
标题
Assessment of metagenomic workflows using a newly constructed human gut microbiome mock community
作者
关键词
-
出版物
DNA RESEARCH
Volume 30, Issue 3, Pages -
出版商
Oxford University Press (OUP)
发表日期
2023-05-31
DOI
10.1093/dnares/dsad010
参考文献
相关参考文献
注意:仅列出部分参考文献,下载原文获取全部文献信息。- Characterization and Demonstration of Mock Communities as Control Reagents for Accurate Human Microbiome Community Measurements
- (2022) Dieter M. Tourlousse et al. Microbiology Spectrum
- Validation and standardization of DNA extraction and library construction methods for metagenomics-based human fecal microbiome measurements
- (2021) Dieter M. Tourlousse et al. Microbiome
- GC bias affects genomic and metagenomic reconstructions, underrepresenting GC-poor organisms
- (2020) Patrick Denis Browne et al. GigaScience
- The neuroactive potential of the human gut microbiota in quality of life and depression
- (2019) Mireia Valles-Colomer et al. Nature Microbiology
- Ultra-deep, long-read nanopore sequencing of mock microbial community standards
- (2019) Samuel M Nicholls et al. GigaScience
- Comparison of the sequencing bias of currently available library preparation kits for Illumina sequencing of bacterial genomes and metagenomes
- (2019) Mitsuhiko P Sato et al. DNA RESEARCH
- MetaBAT 2: an adaptive binning algorithm for robust and efficient genome reconstruction from metagenome assemblies
- (2019) Dongwan D. Kang et al. PeerJ
- OUP accepted manuscript
- (2018) BIOINFORMATICS
- Host genetics and microbiome associations through the lens of genome wide association studies
- (2018) Omer Weissbrod et al. CURRENT OPINION IN MICROBIOLOGY
- Current understanding of the human microbiome
- (2018) Jack A Gilbert et al. NATURE MEDICINE
- Best practices for analysing microbiomes
- (2018) Rob Knight et al. NATURE REVIEWS MICROBIOLOGY
- MetaWRAP—a flexible pipeline for genome-resolved metagenomic data analysis
- (2018) Gherman V. Uritskiy et al. Microbiome
- NGmerge: merging paired-end reads via novel empirically-derived models of sequencing errors
- (2018) John M. Gaspar BMC BIOINFORMATICS
- metaSPAdes: a new versatile metagenomic assembler
- (2017) Sergey Nurk et al. GENOME RESEARCH
- Assessment of variation in microbial community amplicon sequencing by the Microbiome Quality Control (MBQC) project consortium
- (2017) Rashmi Sinha et al. NATURE BIOTECHNOLOGY
- Towards standards for human fecal sample processing in metagenomic studies
- (2017) Paul I Costea et al. NATURE BIOTECHNOLOGY
- Critical Assessment of Metagenome Interpretation—a benchmark of metagenomics software
- (2017) Alexander Sczyrba et al. NATURE METHODS
- Meta-analysis of gut microbiome studies identifies disease-specific and shared responses
- (2017) Claire Duvallet et al. Nature Communications
- The gut microbiome of healthy Japanese and its microbial and functional uniqueness
- (2016) Suguru Nishijima et al. DNA RESEARCH
- DADA2: High-resolution sample inference from Illumina amplicon data
- (2016) Benjamin J Callahan et al. NATURE METHODS
- Next generation sequencing data of a defined microbial mock community
- (2016) Esther Singer et al. Scientific Data
- mockrobiota: a Public Resource for Microbiome Bioinformatics Benchmarking
- (2016) Nicholas A. Bokulich et al. mSystems
- MaxBin 2.0: an automated binning algorithm to recover genomes from multiple metagenomic datasets
- (2015) Yu-Wei Wu 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
- Time-series metagenomic analysis reveals robustness of soil microbiome against chemical disturbance
- (2015) Hiromi Kato et al. DNA RESEARCH
- CheckM: assessing the quality of microbial genomes recovered from isolates, single cells, and metagenomes
- (2015) Donovan H. Parks et al. GENOME RESEARCH
- MetaPhlAn2 for enhanced metagenomic taxonomic profiling
- (2015) Duy Tin Truong et al. NATURE METHODS
- Evaluating variation in human gut microbiota profiles due to DNA extraction method and inter-subject differences
- (2015) Brett Wagner Mackenzie et al. Frontiers in Microbiology
- HTSeq--a Python framework to work with high-throughput sequencing data
- (2014) S. Anders et al. BIOINFORMATICS
- Binning metagenomic contigs by coverage and composition
- (2014) Johannes Alneberg et al. NATURE METHODS
- 16S rRNA gene pyrosequencing of reference and clinical samples and investigation of the temperature stability of microbiome profiles
- (2014) Jun Hang et al. Microbiome
- Design and Experimental Application of a Novel Non-Degenerate Universal Primer Set that Amplifies Prokaryotic 16S rRNA Genes with a Low Possibility to Amplify Eukaryotic rRNA Genes
- (2013) H. Mori et al. DNA RESEARCH
- Ribosomal Database Project: data and tools for high throughput rRNA analysis
- (2013) James R. Cole et al. NUCLEIC ACIDS RESEARCH
- A Guide to Enterotypes across the Human Body: Meta-Analysis of Microbial Community Structures in Human Microbiome Datasets
- (2013) Omry Koren et al. PLoS Computational Biology
- Biases during DNA extraction of activated sludge samples revealed by high throughput sequencing
- (2012) Feng Guo et al. APPLIED MICROBIOLOGY AND BIOTECHNOLOGY
- Gene and translation initiation site prediction in metagenomic sequences
- (2012) Doug Hyatt et al. BIOINFORMATICS
- A framework for human microbiome research
- (2012) NATURE
- Fast gapped-read alignment with Bowtie 2
- (2012) Ben Langmead et al. NATURE METHODS
- Primer3—new capabilities and interfaces
- (2012) Andreas Untergasser et al. NUCLEIC ACIDS RESEARCH
- Measurement of mRNA abundance using RNA-seq data: RPKM measure is inconsistent among samples
- (2012) Günter P. Wagner et al. THEORY IN BIOSCIENCES
- Chimeric 16S rRNA sequence formation and detection in Sanger and 454-pyrosequenced PCR amplicons
- (2011) B. J. Haas et al. GENOME RESEARCH
- The NIH Human Microbiome Project
- (2009) et al. GENOME RESEARCH
- A Bioinformatician's Guide to Metagenomics
- (2008) V. Kunin et al. MICROBIOLOGY AND MOLECULAR BIOLOGY REVIEWS
Find Funding. Review Successful Grants.
Explore over 25,000 new funding opportunities and over 6,000,000 successful grants.
ExploreBecome a Peeref-certified reviewer
The Peeref Institute provides free reviewer training that teaches the core competencies of the academic peer review process.
Get Started