标题
Improved metagenome binning and assembly using deep variational autoencoders
作者
关键词
-
出版物
NATURE BIOTECHNOLOGY
Volume -, Issue -, Pages -
出版商
Springer Science and Business Media LLC
发表日期
2021-01-05
DOI
10.1038/s41587-020-00777-4
参考文献
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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。- scVAE: Variational auto-encoders for single-cell gene expression data
- (2020) Christopher Heje Grønbech et al. BIOINFORMATICS
- Accurate and complete genomes from metagenomes
- (2020) Lin-Xing Chen et al. GENOME RESEARCH
- Extensive Unexplored Human Microbiome Diversity Revealed by Over 150,000 Genomes from Metagenomes Spanning Age, Geography, and Lifestyle
- (2019) Edoardo Pasolli et al. CELL
- A new genomic blueprint of the human gut microbiota
- (2019) Alexandre Almeida et al. NATURE
- Interactive Tree Of Life (iTOL) v4: recent updates and new developments
- (2019) Ivica Letunic et al. NUCLEIC ACIDS RESEARCH
- MetaBAT 2: an adaptive binning algorithm for robust and efficient genome reconstruction from metagenome assemblies
- (2019) Dongwan D. Kang et al. PeerJ
- ape 5.0: an environment for modern phylogenetics and evolutionary analyses in R
- (2018) Emmanuel Paradis et al. BIOINFORMATICS
- Minimap2: pairwise alignment for nucleotide sequences
- (2018) Heng Li BIOINFORMATICS
- SonicParanoid: fast, accurate, and easy orthology inference
- (2018) Salvatore Cosentino et al. BIOINFORMATICS
- ASTRAL-III: polynomial time species tree reconstruction from partially resolved gene trees
- (2018) Chao Zhang et al. BMC BIOINFORMATICS
- Mother-to-Infant Microbial Transmission from Different Body Sites Shapes the Developing Infant Gut Microbiome
- (2018) Pamela Ferretti et al. Cell Host & Microbe
- Recovery of genomes from metagenomes via a dereplication, aggregation and scoring strategy
- (2018) Christian M. K. Sieber et al. Nature Microbiology
- MSPminer: abundance-based reconstitution of microbial pan-genomes from shotgun metagenomic data
- (2018) Florian Plaza Oñate et al. BIOINFORMATICS
- A standardized bacterial taxonomy based on genome phylogeny substantially revises the tree of life
- (2018) Donovan H Parks et al. NATURE BIOTECHNOLOGY
- Depicting the composition of gut microbiota in a population with varied ethnic origins but shared geography
- (2018) Mélanie Deschasaux et al. NATURE MEDICINE
- Regional variation limits applications of healthy gut microbiome reference ranges and disease models
- (2018) Yan He et al. NATURE MEDICINE
- MetaWRAP—a flexible pipeline for genome-resolved metagenomic data analysis
- (2018) Gherman V. Uritskiy et al. Microbiome
- InterPro in 2019: improving coverage, classification and access to protein sequence annotations
- (2018) Alex L Mitchell et al. NUCLEIC ACIDS RESEARCH
- metaSPAdes: a new versatile metagenomic assembler
- (2017) Sergey Nurk et al. GENOME RESEARCH
- UFBoot2: Improving the Ultrafast Bootstrap Approximation
- (2017) Diep Thi Hoang et al. MOLECULAR BIOLOGY AND EVOLUTION
- Minimum information about a single amplified genome (MISAG) and a metagenome-assembled genome (MIMAG) of bacteria and archaea
- (2017) Robert M Bowers et al. NATURE BIOTECHNOLOGY
- Shotgun metagenomics, from sampling to analysis
- (2017) Christopher Quince et al. NATURE BIOTECHNOLOGY
- Critical Assessment of Metagenome Interpretation—a benchmark of metagenomics software
- (2017) Alexander Sczyrba et al. NATURE METHODS
- ModelFinder: fast model selection for accurate phylogenetic estimates
- (2017) Subha Kalyaanamoorthy et al. NATURE METHODS
- In situ click chemistry generation of cyclooxygenase-2 inhibitors
- (2017) Atul Bhardwaj et al. Nature Communications
- Recovery of nearly 8,000 metagenome-assembled genomes substantially expands the tree of life
- (2017) Donovan H. Parks et al. Nature Microbiology
- Studying Vertical Microbiome Transmission from Mothers to Infants by Strain-Level Metagenomic Profiling
- (2017) Francesco Asnicar et al. mSystems
- High definition for systems biology of microbial communities: metagenomics gets genome-centric and strain-resolved
- (2016) Dmitrij Turaev et al. CURRENT OPINION IN BIOTECHNOLOGY
- Metagenome-wide association studies: fine-mining the microbiome
- (2016) Jun Wang et al. NATURE REVIEWS MICROBIOLOGY
- MaxBin 2.0: an automated binning algorithm to recover genomes from multiple metagenomic datasets
- (2015) Yu-Wei Wu et al. BIOINFORMATICS
- CheckM: assessing the quality of microbial genomes recovered from isolates, single cells, and metagenomes
- (2015) Donovan H. Parks et al. GENOME RESEARCH
- Detection of low-abundance bacterial strains in metagenomic datasets by eigengenome partitioning
- (2015) Brian Cleary et al. NATURE BIOTECHNOLOGY
- MetaBAT, an efficient tool for accurately reconstructing single genomes from complex microbial communities
- (2015) Dongwan D. Kang et al. PeerJ
- IQ-TREE: A Fast and Effective Stochastic Algorithm for Estimating Maximum-Likelihood Phylogenies
- (2014) Lam-Tung Nguyen et al. MOLECULAR BIOLOGY AND EVOLUTION
- 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
- MAFFT Multiple Sequence Alignment Software Version 7: Improvements in Performance and Usability
- (2013) K. Katoh et al. MOLECULAR BIOLOGY AND EVOLUTION
- Genome sequences of rare, uncultured bacteria obtained by differential coverage binning of multiple metagenomes
- (2013) Mads Albertsen et al. NATURE BIOTECHNOLOGY
- Genomic variation landscape of the human gut microbiome
- (2012) Siegfried Schloissnig et al. NATURE
- Human gut microbiome viewed across age and geography
- (2012) Tanya Yatsunenko et al. NATURE
- ART: a next-generation sequencing read simulator
- (2011) Weichun Huang et al. BIOINFORMATICS
- Unsupervised discovery of microbial population structure within metagenomes using nucleotide base composition
- (2011) Isaam Saeed et al. NUCLEIC ACIDS RESEARCH
- Prodigal: prokaryotic gene recognition and translation initiation site identification
- (2010) Doug Hyatt et al. BMC BIOINFORMATICS
- A human gut microbial gene catalogue established by metagenomic sequencing
- (2010) Junjie Qin et al. NATURE
- The Sequence Alignment/Map format and SAMtools
- (2009) H. Li et al. BIOINFORMATICS
- Unsupervised statistical clustering of environmental shotgun sequences
- (2009) Andrey Kislyuk et al. BMC BIOINFORMATICS
- BLAST+: architecture and applications
- (2009) Christiam Camacho et al. BMC BIOINFORMATICS
- Circos: An information aesthetic for comparative genomics
- (2009) M. Krzywinski et al. GENOME RESEARCH
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