Metagenomic Analysis of Therapeutic PYO Phage Cocktails from 1997 to 2014

metaSPAdes: a new versatile metagenomic assembler

(2017) Sergey Nurk et al.   GENOME RESEARCH

MGmapper: Reference based mapping and taxonomy annotation of metagenomics sequence reads

(2017) Thomas Nordahl Petersen et al.   PLoS One

Characterization of two polyvalent phages infecting Enterobacteriaceae

(2017) Sana Hamdi et al.   Scientific Reports

Escherichia coli Harboringmcr-1andblaCTX-Mon a Novel IncF Plasmid: First Report ofmcr-1in the United States

(2016) Patrick McGann et al.   ANTIMICROBIAL AGENTS AND CHEMOTHERAPY

Selection of polyvalent bacteriophages infecting Salmonella enterica serovar Choleraesuis

(2016) Bárbara Parra et al.   ELECTRONIC JOURNAL OF BIOTECHNOLOGY

OrthoANI: An improved algorithm and software for calculating average nucleotide identity

(2016) Imchang Lee et al.   INTERNATIONAL JOURNAL OF SYSTEMATIC AND EVOLUTIONARY MICROBIOLOGY

Emergence of plasmid-mediated colistin resistance mechanism MCR-1 in animals and human beings in China: a microbiological and molecular biological study

(2016) Yi-Yun Liu et al.   LANCET INFECTIOUS DISEASES

HostPhinder: A Phage Host Prediction Tool

(2016) Julia Villarroel et al.   Viruses-Basel

MetaPhinder—Identifying Bacteriophage Sequences in Metagenomic Data Sets

(2016) Vanessa Isabell Jurtz et al.   PLoS One

Characterization of the first double-stranded RNA bacteriophage infecting Pseudomonas aeruginosa

(2016) Yuhui Yang et al.   Scientific Reports

Bacteriophages isolated from Lake Michigan demonstrate broad host-range across several bacterial phyla

(2015) Kema Malki et al.   Virology Journal

What Can We Learn from a Metagenomic Analysis of a Georgian Bacteriophage Cocktail?

(2015) Henrike Zschach et al.   Viruses-Basel

MetaBAT, an efficient tool for accurately reconstructing single genomes from complex microbial communities

(2015) Dongwan D. Kang et al.   PeerJ

A highly abundant bacteriophage discovered in the unknown sequences of human faecal metagenomes

(2014) Bas E. Dutilh et al.   Nature Communications

Kraken: ultrafast metagenomic sequence classification using exact alignments

(2014) Derrick E Wood et al.   GENOME BIOLOGY

Sequencing platform and library preparation choices impact viral metagenomes

(2013) Sergei A Solonenko et al.   BMC GENOMICS

Safety analysis of a Russian phage cocktail: From MetaGenomic analysis to oral application in healthy human subjects

(2013) Shawna McCallin et al.   VIROLOGY

SPAdes: A New Genome Assembly Algorithm and Its Applications to Single-Cell Sequencing

(2012) Anton Bankevich et al.   JOURNAL OF COMPUTATIONAL BIOLOGY

Characterization and Comparative Genomic Analysis of a Novel Bacteriophage, SFP10, Simultaneously Inhibiting both Salmonella enterica and Escherichia coli O157:H7

(2011) Minjung Park et al.   APPLIED AND ENVIRONMENTAL MICROBIOLOGY

Quality control and preprocessing of metagenomic datasets

(2011) R. Schmieder et al.   BIOINFORMATICS

BLAST Ring Image Generator (BRIG): simple prokaryote genome comparisons

(2011) Nabil-Fareed Alikhan et al.   BMC GENOMICS

Fast and accurate long-read alignment with Burrows–Wheeler transform

(2010) Heng Li et al.   BIOINFORMATICS

Phage Therapy in Clinical Practice: Treatment of Human Infections

(2010) Elizabeth Kutter et al.   CURRENT PHARMACEUTICAL BIOTECHNOLOGY

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

Gene Mapping and Phylogenetic Analysis of the Complete Genome from 30 Single-Stranded RNA Male-Specific Coliphages (Family Leviviridae)

(2009) S. D. Friedman et al.   JOURNAL OF VIROLOGY