Autometa: automated extraction of microbial genomes from individual shotgun metagenomes
Published 2019 View Full Article
- Home
- Publications
- Publication Search
- Publication Details
Title
Autometa: automated extraction of microbial genomes from individual shotgun metagenomes
Authors
Keywords
-
Journal
NUCLEIC ACIDS RESEARCH
Volume -, Issue -, Pages -
Publisher
Oxford University Press (OUP)
Online
2019-02-22
DOI
10.1093/nar/gkz148
References
Ask authors/readers for more resources
Related references
Note: Only part of the references are listed.- An antifungal polyketide associated with horizontally acquired genes supports symbiont-mediated defense in Lagria villosa beetles
- (2018) Laura V. Flórez et al. Nature Communications
- Recovery of genomes from metagenomes via a dereplication, aggregation and scoring strategy
- (2018) Christian M. K. Sieber et al. Nature Microbiology
- Lateral gene transfer between prokaryotes and eukaryotes
- (2017) Karsten B. Sieber et al. EXPERIMENTAL CELL RESEARCH
- metaSPAdes: a new versatile metagenomic assembler
- (2017) Sergey Nurk 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
- Interpreting Microbial Biosynthesis in the Genomic Age: Biological and Practical Considerations
- (2017) Ian Miller et al. Marine Drugs
- Shotgun metagenomics, from sampling to analysis
- (2017) Christopher Quince et al. NATURE BIOTECHNOLOGY
- BusyBee Web: metagenomic data analysis by bootstrapped supervised binning and annotation
- (2017) Cedric C. Laczny et al. NUCLEIC ACIDS RESEARCH
- Insights into the lifestyle of uncultured bacterial natural product factories associated with marine sponges
- (2017) Gerald Lackner et al. PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA
- Increased Biosynthetic Gene Dosage in a Genome-Reduced Defensive Bacterial Symbiont
- (2017) Juan Lopera et al. mSystems
- Bioinformatics strategies for taxonomy independent binning and visualization of sequences in shotgun metagenomics
- (2017) Karel Sedlar et al. Computational and Structural Biotechnology Journal
- Lack of Overt Genome Reduction in the Bryostatin-Producing Bryozoan Symbiont “Candidatus Endobugula sertula”
- (2016) Ian J. Miller et al. APPLIED AND ENVIRONMENTAL MICROBIOLOGY
- Next-generation sequencing diagnostics of bacteremia in septic patients
- (2016) Silke Grumaz et al. Genome Medicine
- Recovering complete and draft population genomes from metagenome datasets
- (2016) Naseer Sangwan et al. Microbiome
- Integrated multi-omics of the human gut microbiome in a case study of familial type 1 diabetes
- (2016) Anna Heintz-Buschart et al. Nature Microbiology
- Accurate binning of metagenomic contigs via automated clustering sequences using information of genomic signatures and marker genes
- (2016) Hsin-Hung Lin et al. Scientific Reports
- Single sample resolution of rare microbial dark matter in a marine invertebrate metagenome
- (2016) Ian J. Miller et al. Scientific Reports
- MetaQUAST: evaluation of metagenome assemblies
- (2015) Alla Mikheenko 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
- Microbiology: Create a global microbiome effort
- (2015) Nicole Dubilier et al. NATURE
- Unusual biology across a group comprising more than 15% of domain Bacteria
- (2015) Christopher T. Brown et al. NATURE
- Twenty years of bacterial genome sequencing
- (2015) Nicholas J. Loman et al. NATURE REVIEWS MICROBIOLOGY
- Heritable symbiosis: The advantages and perils of an evolutionary rabbit hole
- (2015) Gordon M. Bennett et al. PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA
- A unified initiative to harness Earth's microbiomes
- (2015) A. P. Alivisatos et al. SCIENCE
- MetaBAT, an efficient tool for accurately reconstructing single genomes from complex microbial communities
- (2015) Dongwan D. Kang et al. PeerJ
- VizBin - an application for reference-independent visualization and human-augmented binning of metagenomic data
- (2015) Cedric C Laczny et al. Microbiome
- The Road to Metagenomics: From Microbiology to DNA Sequencing Technologies and Bioinformatics
- (2015) Alejandra Escobar-Zepeda et al. Frontiers in Genetics
- Trimmomatic: a flexible trimmer for Illumina sequence data
- (2014) Anthony M. Bolger et al. BIOINFORMATICS
- MinION nanopore sequencing identifies the position and structure of a bacterial antibiotic resistance island
- (2014) Philip M Ashton et al. NATURE BIOTECHNOLOGY
- Identification and assembly of genomes and genetic elements in complex metagenomic samples without using reference genomes
- (2014) H Bjørn Nielsen et al. NATURE BIOTECHNOLOGY
- Fast and sensitive protein alignment using DIAMOND
- (2014) Benjamin Buchfink et al. NATURE METHODS
- Binning metagenomic contigs by coverage and composition
- (2014) Johannes Alneberg et al. NATURE METHODS
- Alignment-free Visualization of Metagenomic Data by Nonlinear Dimension Reduction
- (2014) Cedric C. Laczny et al. Scientific Reports
- Culture-independent detection and characterisation ofMycobacterium tuberculosisandM. africanumin sputum samples using shotgun metagenomics on a benchtop sequencer
- (2014) Emma L. Doughty et al. PeerJ
- MaxBin: an automated binning method to recover individual genomes from metagenomes using an expectation-maximization algorithm
- (2014) Yu-Wei Wu et al. Microbiome
- 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
- Insights into the phylogeny and coding potential of microbial dark matter
- (2013) Christian Rinke et al. NATURE
- Genome sequences of rare, uncultured bacteria obtained by differential coverage binning of multiple metagenomes
- (2013) Mads Albertsen et al. NATURE BIOTECHNOLOGY
- Phylogenomic analysis of bacterial and archaeal sequences with AMPHORA2
- (2012) Martin Wu et al. BIOINFORMATICS
- Genomic insights into the marine sponge microbiome
- (2012) Ute Hentschel et al. NATURE REVIEWS MICROBIOLOGY
- Detection of Staphylococcal Cassette ChromosomemecType XI Carrying Highly DivergentmecA,mecI,mecR1,blaZ, andccrGenes in Human Clinical Isolates of Clonal Complex 130 Methicillin-ResistantStaphylococcus aureus
- (2011) Anna C. Shore et al. ANTIMICROBIAL AGENTS AND CHEMOTHERAPY
- ART: a next-generation sequencing read simulator
- (2011) Weichun Huang et al. BIOINFORMATICS
- Extreme genome reduction in symbiotic bacteria
- (2011) John P. McCutcheon et al. NATURE REVIEWS MICROBIOLOGY
- The Impact of a Consortium of Fermented Milk Strains on the Gut Microbiome of Gnotobiotic Mice and Monozygotic Twins
- (2011) N. P. McNulty et al. Science Translational Medicine
- Prodigal: prokaryotic gene recognition and translation initiation site identification
- (2010) Doug Hyatt et al. BMC BIOINFORMATICS
- Community-wide analysis of microbial genome sequence signatures
- (2009) Gregory J Dick et al. GENOME BIOLOGY
- Comparative genomics: the bacterial pan-genome
- (2008) Hervé Tettelin et al. CURRENT OPINION IN MICROBIOLOGY
- When did oxygenic photosynthesis evolve?
- (2008) R. Buick PHILOSOPHICAL TRANSACTIONS OF THE ROYAL SOCIETY B-BIOLOGICAL SCIENCES
Publish scientific posters with Peeref
Peeref publishes scientific posters from all research disciplines. Our Diamond Open Access policy means free access to content and no publication fees for authors.
Learn MoreCreate your own webinar
Interested in hosting your own webinar? Check the schedule and propose your idea to the Peeref Content Team.
Create Now