IMG/M 4 version of the integrated metagenome comparative analysis system
|
journal
|
October 2013 |
Fluids from Aging Ocean Crust That Support Microbial Life
|
journal
|
January 2003 |
Environmental Genomics Reveals a Single-Species Ecosystem Deep Within Earth
|
journal
|
October 2008 |
Characterization of bacterial diversity to a depth of 1500 m in the Outokumpu deep borehole, Fennoscandian Shield: Deep terrestrial biodiversity
|
journal
|
May 2011 |
The standard operating procedure of the DOE-JGI Microbial Genome Annotation Pipeline (MGAP v.4)
|
journal
|
October 2015 |
Gene and translation initiation site prediction in metagenomic sequences
|
journal
|
July 2012 |
Circos: An information aesthetic for comparative genomics
|
journal
|
June 2009 |
A metagenomic window into carbon metabolism at 3 km depth in Precambrian continental crust
|
journal
|
September 2015 |
Phylogenetic diversity of microorganisms in subseafloor crustal fluids from Holes 1025C and 1026B along the Juan de Fuca Ridge flank
|
journal
|
March 2014 |
Microbial and functional diversity of a subterrestrial high pH groundwater associated to serpentinization: Microbial and functional diversity of subsurface aquifer
|
journal
|
November 2012 |
Comparisons of the composition and biogeographic distribution of the bacterial communities occupying South African thermal springs with those inhabiting deep subsurface fracture water
|
journal
|
December 2014 |
Dissolved hydrogen and methane in the oceanic basaltic biosphere
|
journal
|
November 2014 |
EMIRGE: reconstruction of full-length ribosomal genes from microbial community short read sequencing data
|
journal
|
May 2011 |
FastTree 2 – Approximately Maximum-Likelihood Trees for Large Alignments
|
journal
|
March 2010 |
Advanced instrument system for real-time and time-series microbial geochemical sampling of the deep (basaltic) crustal biosphere
|
journal
|
March 2012 |
Dissolved organic carbon in ridge-axis and ridge-flank hydrothermal systems
|
journal
|
August 2006 |
Long-Term Sustainability of a High-Energy, Low-Diversity Crustal Biome
|
journal
|
October 2006 |
IMG: the integrated microbial genomes database and comparative analysis system
|
journal
|
December 2011 |
Easyfig: a genome comparison visualizer
|
journal
|
January 2011 |
Thermal effects on microbial composition and microbiologically induced corrosion and mineral precipitation affecting operation of a geothermal plant in a deep saline aquifer
|
journal
|
January 2013 |
Reverse dissimilatory sulfite reductase as phylogenetic marker for a subgroup of sulfur-oxidizing prokaryotes
|
journal
|
February 2009 |
RAxML-VI-HPC: maximum likelihood-based phylogenetic analyses with thousands of taxa and mixed models
|
journal
|
August 2006 |
CheckM: assessing the quality of microbial genomes recovered from isolates, single cells, and metagenomes
|
journal
|
May 2015 |
Metagenome sequencing and 98 microbial genomes from Juan de Fuca Ridge flank subsurface fluids
|
journal
|
March 2017 |
Inorganic chemistry, gas compositions and dissolved organic carbon in fluids from sedimented young basaltic crust on the Juan de Fuca Ridge flanks
|
journal
|
May 2012 |
ProDeGe: a computational protocol for fully automated decontamination of genomes
|
journal
|
June 2015 |
MaxBin: an automated binning method to recover individual genomes from metagenomes using an expectation-maximization algorithm
|
journal
|
August 2014 |
Activity and phylogenetic diversity of sulfate-reducing microorganisms in low-temperature subsurface fluids within the upper oceanic crust
|
journal
|
January 2015 |
Microbial diversity within basement fluids of the sediment-buried Juan de Fuca Ridge flank
|
journal
|
July 2012 |
Interactive tree of life (iTOL) v3: an online tool for the display and annotation of phylogenetic and other trees
|
journal
|
April 2016 |
Prokaryotic taxonomy and phylogeny in the genomic era: advancements and challenges ahead
|
journal
|
October 2007 |
SINA: Accurate high-throughput multiple sequence alignment of ribosomal RNA genes
|
journal
|
May 2012 |
Systematic Identification of Gene Families for Use as “Markers” for Phylogenetic and Phylogeny-Driven Ecological Studies of Bacteria and Archaea and Their Major Subgroups
|
journal
|
October 2013 |
ARB: a software environment for sequence data
|
journal
|
February 2004 |
SPAdes: A New Genome Assembly Algorithm and Its Applications to Single-Cell Sequencing
|
journal
|
May 2012 |
Accelerated Profile HMM Searches
|
journal
|
October 2011 |
The standard operating procedure of the DOE-JGI Metagenome Annotation Pipeline (MAP v.4)
|
journal
|
February 2016 |
Towards a Genome-Based Taxonomy for Prokaryotes
|
journal
|
September 2005 |
Phylogeny and phylogeography of functional genes shared among seven terrestrial subsurface metagenomes reveal N-cycling and microbial evolutionary relationships
|
journal
|
October 2014 |
Fast gapped-read alignment with Bowtie 2
|
journal
|
March 2012 |
Single cell genomics indicates horizontal gene transfer and viral infections in a deep subsurface Firmicutes population
|
journal
|
April 2015 |
Basic local alignment search tool
|
journal
|
October 1990 |
FR-HIT, a very fast program to recruit metagenomic reads to homologous reference genomes
|
journal
|
April 2011 |
A Rapid Bootstrap Algorithm for the RAxML Web Servers
|
journal
|
October 2008 |
PhyloSift: phylogenetic analysis of genomes and metagenomes
|
journal
|
January 2014 |
Variations in microbial carbon sources and cycling in the deep continental subsurface
|
journal
|
January 2016 |
pplacer: linear time maximum-likelihood and Bayesian phylogenetic placement of sequences onto a fixed reference tree
|
journal
|
October 2010 |
Genomic insights that advance the species definition for prokaryotes
|
journal
|
February 2005 |
Novel microbial assemblages inhabiting crustal fluids within mid-ocean ridge flank subsurface basalt
|
journal
|
February 2016 |
jModelTest 2: more models, new heuristics and parallel computing
|
journal
|
July 2012 |
PhyloSift: Phylogenetic analysis of genomes and metagenomes
|
dataset
|
January 2013 |
EMIRGE-reconstructed-SSU-rRNA-genes-from-1362A-1362B-metagenomes.fasta
|
dataset
|
January 2017 |
PhyloSift: Phylogenetic analysis of genomes and metagenomes
|
dataset
|
January 2013 |
Salinimonas marina sp. nov. Isolated from Jeju Island Marine Sediment
|
journal
|
June 2021 |
Formation of Ammonium from Nitrate During Chemolithoautotrophic Growth of the Extremely Thermophilic Bacterium Ammonifex degensii gen. nov. sp. nov.
|
journal
|
March 1996 |
Genetic basis for the establishment of endosymbiosis in Paramecium
|
journal
|
January 2019 |
Anaerobic hydrocarbon degradation in candidate phylum ‘Atribacteria’ (JS1) inferred from genomics
|
journal
|
June 2019 |
Rhizosphere bacteriome structure and functions
|
journal
|
February 2022 |
Characterizing the molecular regulation of inhibitory immune checkpoints with multimodal single-cell screens
|
journal
|
March 2021 |
Microevolution of Campylobacter jejuni during long-term infection in an immunocompromised host
|
journal
|
June 2020 |
Updating Prokaryotic Taxonomy
|
journal
|
September 2005 |
ProDeGe: a computational protocol for fully automated decontamination of genomes
|
text
|
January 2016 |
pplacer: linear time maximum-likelihood and Bayesian phylogenetic placement of sequences onto a fixed reference tree
|
preprint
|
January 2010 |