The MAR databases: development and implementation of databases specific for marine metagenomics

Databases of the marine metagenomics

(2016) Katsuhiko Mineta et al.   GENE

MicroScope in 2017: an expanding and evolving integrated resource for community expertise of microbial genomes

(2016) David Vallenet et al.   NUCLEIC ACIDS RESEARCH

Improvements to PATRIC, the all-bacterial Bioinformatics Database and Analysis Resource Center

(2016) Alice R. Wattam et al.   NUCLEIC ACIDS RESEARCH

IMG/M: integrated genome and metagenome comparative data analysis system

(2016) I-Min A. Chen et al.   NUCLEIC ACIDS RESEARCH

Genomes OnLine Database (GOLD) v.6: data updates and feature enhancements

(2016) Supratim Mukherjee et al.   NUCLEIC ACIDS RESEARCH

Global metagenomic survey reveals a new bacterial candidate phylum in geothermal springs

(2016) Emiley A. Eloe-Fadrosh et al.   Nature Communications

The ecologist's field guide to sequence-based identification of biodiversity

(2016) Simon Creer et al.   Methods in Ecology and Evolution

MEGAHIT: an ultra-fast single-node solution for large and complex metagenomics assembly via succinct de Bruijn graph

(2015) Dinghua Li et al.   BIOINFORMATICS

Computational eco-systems biology in Tara Oceans: translating data into knowledge

(2015) S. Sunagawa et al.   Molecular Systems Biology

Reference sequence (RefSeq) database at NCBI: current status, taxonomic expansion, and functional annotation

(2015) Nuala A. O'Leary et al.   NUCLEIC ACIDS RESEARCH

EBI metagenomics in 2016 - an expanding and evolving resource for the analysis and archiving of metagenomic data

(2015) Alex Mitchell et al.   NUCLEIC ACIDS RESEARCH

UniRef clusters: a comprehensive and scalable alternative for improving sequence similarity searches

(2014) B. E. Suzek et al.   BIOINFORMATICS

Prokka: rapid prokaryotic genome annotation

(2014) T. Seemann   BIOINFORMATICS

InterProScan 5: genome-scale protein function classification

(2014) P. Jones et al.   BIOINFORMATICS

Impact of single-cell genomics and metagenomics on the emerging view of extremophile “microbial dark matter”

(2014) Brian P. Hedlund et al.   EXTREMOPHILES

The Amazon continuum dataset: quantitative metagenomic and metatranscriptomic inventories of the Amazon River plume, June 2010

(2014) Brandon M Satinsky et al.   Microbiome

Global Coordination and Standardisation in Marine Biodiversity through the World Register of Marine Species (WoRMS) and Related Databases

(2013) Mark J. Costello et al.   PLoS One

VIROME: a standard operating procedure for analysis of viral metagenome sequences

(2012) K. Eric Wommack et al.   Standards in Genomic Sciences

Spain's ship comes in

(2011) Lucas Laursen   NATURE

Marine microbial genomics in Europe: current status and perspectives

(2010) Frank Oliver Glöckner et al.   Microbial Biotechnology

Metagenomes and metatranscriptomes from the L4 long-term coastal monitoring station in the Western English Channel

(2010) Jack A. Gilbert et al.   Standards in Genomic Sciences

Megx.net: integrated database resource for marine ecological genomics

(2009) R. Kottmann et al.   NUCLEIC ACIDS RESEARCH

The metagenomics RAST server – a public resource for the automatic phylogenetic and functional analysis of metagenomes

(2008) F Meyer et al.   BMC BIOINFORMATICS

Genomic sequencing of single microbial cells from environmental samples

(2008) Thomas Ishoey et al.   CURRENT OPINION IN MICROBIOLOGY

MetaGeneAnnotator: Detecting Species-Specific Patterns of Ribosomal Binding Site for Precise Gene Prediction in Anonymous Prokaryotic and Phage Genomes

(2008) H. Noguchi et al.   DNA RESEARCH

NCBI BLAST: a better web interface

(2008) M. Johnson et al.   NUCLEIC ACIDS RESEARCH

Toward an Online Repository of Standard Operating Procedures (SOPs) for (Meta)genomic Annotation

(2008) Samuel V. Angiuoli et al.   OMICS-A JOURNAL OF INTEGRATIVE BIOLOGY