Reconstructing the Genomic Content of Microbiome Taxa through Shotgun Metagenomic Deconvolution
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Title
Reconstructing the Genomic Content of Microbiome Taxa through Shotgun Metagenomic Deconvolution
Authors
Keywords
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Journal
PLoS Computational Biology
Volume 9, Issue 10, Pages e1003292
Publisher
Public Library of Science (PLoS)
Online
2013-10-18
DOI
10.1371/journal.pcbi.1003292
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- (2013) Mads Albertsen et al. NATURE BIOTECHNOLOGY
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- (2012) Kerensa E McElroy et al. BMC GENOMICS
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- (2012) Yi Wang et al. JOURNAL OF COMPUTATIONAL BIOLOGY
- Testing the Infinitely Many Genes Model for the Evolution of the Bacterial Core Genome and Pangenome
- (2012) R. Eric Collins et al. MOLECULAR BIOLOGY AND EVOLUTION
- Defining the core Arabidopsis thaliana root microbiome
- (2012) Derek S. Lundberg et al. NATURE
- Revealing structure and assembly cues for Arabidopsis root-inhabiting bacterial microbiota
- (2012) Davide Bulgarelli et al. NATURE
- A framework for human microbiome research
- (2012) NATURE
- A metagenome-wide association study of gut microbiota in type 2 diabetes
- (2012) Junjie Qin et al. NATURE
- Genomic variation landscape of the human gut microbiome
- (2012) Siegfried Schloissnig et al. NATURE
- Metagenomic microbial community profiling using unique clade-specific marker genes
- (2012) Nicola Segata et al. NATURE METHODS
- Assessment of Metagenomic Assembly Using Simulated Next Generation Sequencing Data
- (2012) Daniel R. Mende et al. PLoS One
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- (2012) Kristine M. Wylie et al. PLoS One
- Optimizing Read Mapping to Reference Genomes to Determine Composition and Species Prevalence in Microbial Communities
- (2012) John Martin et al. PLoS One
- Functional Biogeography of Ocean Microbes Revealed through Non-Negative Matrix Factorization
- (2012) Xingpeng Jiang et al. PLoS One
- The “Most Wanted” Taxa from the Human Microbiome for Whole Genome Sequencing
- (2012) Anthony A. Fodor et al. PLoS One
- Correlating microbial community profiles with geochemical data in highly stratified sediments from the Arctic Mid-Ocean Ridge
- (2012) S. L. Jorgensen et al. PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA
- A hydrothermal seep on the Costa Rica margin: middle ground in a continuum of reducing ecosystems
- (2012) L. A. Levin et al. PROCEEDINGS OF THE ROYAL SOCIETY B-BIOLOGICAL SCIENCES
- Seasonality in Ocean Microbial Communities
- (2012) S. J. Giovannoni et al. SCIENCE
- Untangling Genomes from Metagenomes: Revealing an Uncultured Class of Marine Euryarchaeota
- (2012) V. Iverson et al. SCIENCE
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- (2012) V. J. Denef et al. SCIENCE
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- (2012) Shujiro Okuda et al. Nature Communications
- Joint Analysis of Multiple Metagenomic Samples
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- Microbial Co-occurrence Relationships in the Human Microbiome
- (2012) Karoline Faust et al. PLoS Computational Biology
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- (2012) Steven W. Kembel et al. PLoS Computational Biology
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- (2012) Nicola Segata et al. GENOME BIOLOGY
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- (2012) ZEEHASHAM RASHEED et al. Journal of Bioinformatics and Computational Biology
- Integrative analysis of environmental sequences using MEGAN4
- (2011) D. H. Huson et al. GENOME RESEARCH
- De novo metagenomic assembly reveals abundant novel major lineage of Archaea in hypersaline microbial communities
- (2011) Priya Narasingarao et al. ISME Journal
- A Novel Abundance-Based Algorithm for Binning Metagenomic Sequences Using l-tuples
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- A non-negative matrix factorization framework for identifying modular patterns in metagenomic profile data
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- (2011) Justin Kuczynski et al. NATURE REVIEWS GENETICS
- Unsupervised discovery of microbial population structure within metagenomes using nucleotide base composition
- (2011) Isaam Saeed et al. NUCLEIC ACIDS RESEARCH
- IMG: the integrated microbial genomes database and comparative analysis system
- (2011) V. M. Markowitz et al. NUCLEIC ACIDS RESEARCH
- KEGG for integration and interpretation of large-scale molecular data sets
- (2011) M. Kanehisa et al. NUCLEIC ACIDS RESEARCH
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- (2011) E. Kim et al. PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA
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