Rising to the challenge: accelerated pace of discovery transforms marine virology
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journal
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February 2015 |
The GAAS Metagenomic Tool and Its Estimations of Viral and Microbial Average Genome Size in Four Major Biomes
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December 2009 |
Utilization of defined microbial communities enables effective evaluation of meta-genomic assemblies
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April 2017 |
Recombination and microdiversity in coastal marine cyanophages
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journal
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November 2009 |
Utilizing novel diversity estimators to quantify multiple dimensions of microbial biodiversity across domains
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journal
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January 2013 |
Assembly of Viral Metagenomes from Yellowstone Hot Springs
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journal
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April 2008 |
Accurate, multi-kb reads resolve complex populations and detect rare microorganisms
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journal
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February 2015 |
ggplot2
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book
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January 2009 |
Depth-stratified functional and taxonomic niche specialization in the ‘core’ and ‘flexible’ Pacific Ocean Virome
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journal
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August 2014 |
Minimum information about a single amplified genome (MISAG) and a metagenome-assembled genome (MIMAG) of bacteria and archaea
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journal
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August 2017 |
Evaluation of viral genome assembly and diversity estimation in deep metagenomes
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journal
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January 2014 |
Seasonality and monthly dynamics of marine myovirus communities: Marine myovirus community dynamics at SPOT
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April 2012 |
Recovering complete and draft population genomes from metagenome datasets
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journal
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March 2016 |
Viruses as Winners in the Game of Life
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journal
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September 2016 |
Time series community genomics analysis reveals rapid shifts in bacterial species, strains, and phage during infant gut colonization
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journal
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August 2012 |
Genomic differentiation among wild cyanophages despite widespread horizontal gene transfer
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journal
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November 2016 |
Fermentation, Hydrogen, and Sulfur Metabolism in Multiple Uncultivated Bacterial Phyla
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journal
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September 2012 |
Towards quantitative metagenomics of wild viruses and other ultra-low concentration DNA samples: a rigorous assessment and optimization of the linker amplification method: Linker amplification for ultra-low DNA samples
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journal
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June 2012 |
Differential expression analysis for sequence count data
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journal
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October 2010 |
Using ecological diversity measures with bacterial communities
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journal
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February 2003 |
Challenges in the analysis of viral metagenomes
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journal
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July 2016 |
Trimmomatic: a flexible trimmer for Illumina sequence data
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April 2014 |
Patterns and ecological drivers of ocean viral communities
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journal
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May 2015 |
Probing Individual Environmental Bacteria for Viruses by Using Microfluidic Digital PCR
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journal
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June 2011 |
Waste Not, Want Not: Why Rarefying Microbiome Data Is Inadmissible
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journal
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April 2014 |
The khmer software package: enabling efficient nucleotide sequence analysis
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journal
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January 2015 |
Comparing and Evaluating Metagenome Assembly Tools from a Microbiologist’s Perspective - Not Only Size Matters!
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journal
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January 2017 |
Where Next for Microbiome Research?
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journal
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January 2015 |
Assessing the Impact of Assemblers on Virus Detection in a De Novo Metagenomic Analysis Pipeline
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journal
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September 2017 |
Towards quantitative viromics for both double-stranded and single-stranded DNA viruses
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journal
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January 2016 |
Multidimensional metrics for estimating phage abundance, distribution, gene density, and sequence coverage in metagenomes
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journal
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May 2015 |
metaSPAdes: a new versatile metagenomic assembler
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journal
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March 2017 |
Single-virus genomics reveals hidden cosmopolitan and abundant viruses
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journal
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June 2017 |
Assessment of Metagenomic Assembly Using Simulated Next Generation Sequencing Data
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journal
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February 2012 |
MetaVelvet: an extension of Velvet assembler to de novo metagenome assembly from short sequence reads
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journal
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July 2012 |
Pyrosequencing enumerates and contrasts soil microbial diversity
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journal
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July 2007 |
Are we missing half of the viruses in the ocean?
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journal
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November 2012 |
Assessing the Diversity and Specificity of Two Freshwater Viral Communities through Metagenomics
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journal
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March 2012 |
CheckM: assessing the quality of microbial genomes recovered from isolates, single cells, and metagenomes
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journal
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May 2015 |
Metabolic reprogramming by viruses in the sunlit and dark ocean
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journal
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January 2013 |
MEGAHIT v1.0: A fast and scalable metagenome assembler driven by advanced methodologies and community practices
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journal
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June 2016 |
Using MUMmer to Identify Similar Regions in Large Sequence Sets
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journal
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January 2003 |
IMG/VR: a database of cultured and uncultured DNA Viruses and retroviruses
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journal
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October 2016 |
Omega: an Overlap-graph de novo Assembler for Metagenomics
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journal
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June 2014 |
IDBA-UD: a de novo assembler for single-cell and metagenomic sequencing data with highly uneven depth
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journal
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April 2012 |
Comparison of different assembly and annotation tools on analysis of simulated viral metagenomic communities in the gut
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journal
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January 2014 |
Viral metagenomics
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journal
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May 2005 |
Marine T4-type bacteriophages, a ubiquitous component of the dark matter of the biosphere
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journal
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August 2005 |
edgeR: a Bioconductor package for differential expression analysis of digital gene expression data
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journal
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November 2009 |
Distantly sampled soils carry few species in common
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journal
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June 2008 |
NeSSM: A Next-Generation Sequencing Simulator for Metagenomics
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journal
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October 2013 |
Metagenomic 16S rDNA Illumina tags are a powerful alternative to amplicon sequencing to explore diversity and structure of microbial communities: Using
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journal
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September 2013 |
Metavir 2: new tools for viral metagenome comparison and assembled virome analysis
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journal
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January 2014 |
A survey of error-correction methods for next-generation sequencing
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journal
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April 2012 |
Robust estimation of microbial diversity in theory and in practice
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journal
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February 2013 |
Differential abundance analysis for microbial marker-gene surveys
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journal
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September 2013 |
The bright side of microbial dark matter: lessons learned from the uncultivated majority
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journal
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June 2016 |
vConTACT: an iVirus tool to classify double-stranded DNA viruses that infect Archaea and Bacteria
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journal
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January 2017 |
Microbes do not follow the elevational diversity patterns of plants and animals
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journal
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April 2011 |
Unveiling viral–host interactions within the ‘microbial dark matter’
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journal
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August 2014 |
Viral and microbial community dynamics in four aquatic environments
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journal
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February 2010 |
Single-cell and population level viral infection dynamics revealed by phageFISH, a method to visualize intracellular and free viruses: phageFISH - visualizing intracellular and free viruses
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journal
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March 2013 |
The Microbial Engines That Drive Earth's Biogeochemical Cycles
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journal
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May 2008 |
Fragmentation and Coverage Variation in Viral Metagenome Assemblies, and Their Effect in Diversity Calculations
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journal
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September 2015 |
Genomic diversification of marine cyanophages into stable ecotypes: Cyanophage diversification into ecotypes
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journal
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October 2016 |
Transcriptomic analysis of female and male gonads in juvenile snakeskin gourami (Trichopodus pectoralis)
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journal
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March 2020 |
Characterization and functional analysis of phytoene synthase gene family in tobacco
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journal
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January 2021 |
Assessing the impact of assemblers on virus detection in a de novo metagenomic analysis pipeline
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text
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January 2019 |
Differential expression analysis for sequence count data
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journal
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April 2010 |
Waste Not, Want Not: Why Rarefying Microbiome Data is Inadmissible
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text
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January 2013 |
Salinimonas marina sp. nov. Isolated from Jeju Island Marine Sediment
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journal
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June 2021 |
Binning Metagenomic Contigs Using Unsupervised Clustering and Reference Databases
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journal
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May 2022 |
CXCR4 signaling directs Igk recombination and the molecular mechanisms of late B lymphopoiesis
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journal
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September 2019 |
Targeting redox metabolism: the perfect storm induced by acrylamide poisoning in the brain
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journal
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January 2020 |
Intestinal bacteria flora changes in patients with Mycoplasma pneumoniae pneumonia with or without wheezing
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April 2022 |
Salinity tolerance mechanisms of an Arctic Pelagophyte using comparative transcriptomic and gene expression analysis
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journal
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May 2022 |
Development of phoH as a Novel Signature Gene for Assessing Marine Phage Diversity
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journal
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September 2011 |
New mini- zincin structures provide a minimal scaffold for members of this metallopeptidase superfamily
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journal
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January 2014 |