Simulating metagenomic stable isotope probing datasets with MetaSIPSim
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Title
Simulating metagenomic stable isotope probing datasets with MetaSIPSim
Authors
Keywords
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Journal
BMC BIOINFORMATICS
Volume 21, Issue 1, Pages -
Publisher
Springer Science and Business Media LLC
Online
2020-01-31
DOI
10.1186/s12859-020-3372-6
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- (2018) Albert L. Müller et al. ENVIRONMENTAL MICROBIOLOGY
- Bacterial contributions to delignification and lignocellulose degradation in forest soils with metagenomic and quantitative stable isotope probing
- (2018) Roland C. Wilhelm et al. ISME Journal
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- Phylogenetically conserved resource partitioning in the coastal microbial loop
- (2017) Samuel Bryson et al. ISME Journal
- Targeted metagenomics of active microbial populations with stable-isotope probing
- (2016) Sara Coyotzi et al. CURRENT OPINION IN BIOTECHNOLOGY
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- (2016) Dinghua Li et al. METHODS
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- (2016) J. A. Frank et al. Scientific Reports
- Unearthing the Ecology of Soil Microorganisms Using a High Resolution DNA-SIP Approach to Explore Cellulose and Xylose Metabolism in Soil
- (2016) Charles Pepe-Ranney et al. Frontiers in Microbiology
- Quantitative Microbial Ecology through Stable Isotope Probing
- (2015) Bruce A. Hungate et al. APPLIED AND ENVIRONMENTAL MICROBIOLOGY
- MetaQUAST: evaluation of metagenome assemblies
- (2015) Alla Mikheenko et al. BIOINFORMATICS
- Combining metagenomics with metaproteomics and stable isotope probing reveals metabolic pathways used by a naturally occurring marine methylotroph
- (2015) Carolina Grob et al. ENVIRONMENTAL MICROBIOLOGY
- Non-cyanobacterial diazotrophs mediate dinitrogen fixation in biological soil crusts during early crust formation
- (2015) Charles Pepe-Ranney et al. ISME Journal
- Reference sequence (RefSeq) database at NCBI: current status, taxonomic expansion, and functional annotation
- (2015) Nuala A. O'Leary et al. NUCLEIC ACIDS RESEARCH
- MetaBAT, an efficient tool for accurately reconstructing single genomes from complex microbial communities
- (2015) Dongwan D. Kang et al. PeerJ
- Sequencing depth and coverage: key considerations in genomic analyses
- (2014) David Sims et al. NATURE REVIEWS GENETICS
- Multisubstrate Isotope Labeling and Metagenomic Analysis of Active Soil Bacterial Communities
- (2014) Y. Verastegui et al. mBio
- Stable isotope probing in the metagenomics era: A bridge towards improved bioremediation
- (2012) Ondrej Uhlik et al. BIOTECHNOLOGY ADVANCES
- Active Methanotrophs in Two Contrasting North American Peatland Ecosystems Revealed Using DNA-SIP
- (2011) Varun Gupta et al. MICROBIAL ECOLOGY
- When metagenomics meets stable-isotope probing: progress and perspectives
- (2010) Yin Chen et al. TRENDS IN MICROBIOLOGY
- Use of Inorganic and Organic Nitrogen by Synechococcus spp. and Diatoms on the West Florida Shelf as Measured Using Stable Isotope Probing
- (2009) B. Wawrik et al. APPLIED AND ENVIRONMENTAL MICROBIOLOGY
- 15N2–DNA–stable isotope probing of diazotrophic methanotrophs in soil
- (2007) Daniel H. Buckley et al. SOIL BIOLOGY & BIOCHEMISTRY
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