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Basic Local Alignment Search Tool
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October 1990 |
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Route of NCLDV evolution: the genomic accordion
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October 2013 |
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Viral metagenomics: are we missing the giants?
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June 2016 |
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Updating strategies for isolating and discovering giant viruses
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June 2016 |
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I am what I eat and I eat what I am: acquisition of bacterial genes by giant viruses
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January 2007 |
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Origin of giant viruses from smaller DNA viruses not from a fourth domain of cellular life
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October 2014 |
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Origins and evolution of viruses of eukaryotes: The ultimate modularity
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May 2015 |
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Genome sequencing in microfabricated high-density picolitre reactors
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July 2005 |
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Fast and sensitive protein alignment using DIAMOND
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November 2014 |
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Virus taxonomy in the age of metagenomics
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January 2017 |
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Giant virus with a remarkable complement of genes infects marine zooplankton
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October 2010 |
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Tracking heavy water (D 2 O) incorporation for identifying and sorting active microbial cells
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December 2014 |
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A Simple, Fast, and Accurate Algorithm to Estimate Large Phylogenies by Maximum Likelihood
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October 2003 |
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SPAdes: A New Genome Assembly Algorithm and Its Applications to Single-Cell Sequencing
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May 2012 |
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Assembling Single-Cell Genomes and Mini-Metagenomes From Chimeric MDA Products
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October 2013 |
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The Sequence Alignment/Map format and SAMtools
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June 2009 |
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PhyloBayes 3: a Bayesian software package for phylogenetic reconstruction and molecular dating
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June 2009 |
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Count: evolutionary analysis of phylogenetic profiles with parsimony and likelihood
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June 2010 |
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IDBA-UD: a de novo assembler for single-cell and metagenomic sequencing data with highly uneven depth
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April 2012 |
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Infernal 1.1: 100-fold faster RNA homology searches
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September 2013 |
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The rapidly expanding universe of giant viruses: Mimivirus, Pandoravirus, Pithovirus and Mollivirus
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September 2015 |
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The Deep Archaeal Roots of Eukaryotes
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April 2008 |
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Streamlining and Large Ancestral Genomes in Archaea Inferred with a Phylogenetic Birth-and-Death Model
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June 2009 |
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Rooting the Eukaryotic Tree with Mitochondrial and Bacterial Proteins
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December 2011 |
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tRNAscan-SE: A Program for Improved Detection of Transfer RNA Genes in Genomic Sequence
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March 1997 |
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GeneMarkS: a self-training method for prediction of gene starts in microbial genomes. Implications for finding sequence motifs in regulatory regions
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June 2001 |
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The Pfam Protein Families Database
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January 2002 |
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MUSCLE: multiple sequence alignment with high accuracy and high throughput
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March 2004 |
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Rfam: updates to the RNA families database
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January 2009 |
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The SILVA ribosomal RNA gene database project: improved data processing and web-based tools
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November 2012 |
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IMG/M: integrated genome and metagenome comparative data analysis system
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October 2016 |
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New Algorithms and Methods to Estimate Maximum-Likelihood Phylogenies: Assessing the Performance of PhyML 3.0
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March 2010 |
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PhyloBayes MPI: Phylogenetic Reconstruction with Infinite Mixtures of Profiles in a Parallel Environment
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April 2013 |
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Evolution of viruses and cells: do we need a fourth domain of life to explain the origin of eukaryotes?
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September 2015 |
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Circos: An information aesthetic for comparative genomics
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June 2009 |
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Mauve: Multiple Alignment of Conserved Genomic Sequence With Rearrangements
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June 2004 |
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Raman-FISH: combining stable-isotope Raman spectroscopy and fluorescence in situ hybridization for the single cell analysis of identity and function
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August 2007 |
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A Giant Virus in Amoebae
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March 2003 |
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The 1.2-Megabase Genome Sequence of Mimivirus
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November 2004 |
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Origin and Evolution of Eukaryotic Large Nucleo-Cytoplasmic DNA Viruses
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January 2010 |
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Giant Viruses: Conflicts in Revisiting the Virus Concept
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January 2010 |
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Reclassification of Giant Viruses Composing a Fourth Domain of Life in the New Order Megavirales
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January 2012 |
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SSPACE-LongRead: scaffolding bacterial draft genomes using long read sequence information
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June 2014 |
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Suppression of long-branch attraction artefacts in the animal phylogeny using a site-heterogeneous model
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January 2007 |
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Mimiviridae: clusters of orthologous genes, reconstruction of gene repertoire evolution and proposed expansion of the giant virus family
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journal
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January 2013 |
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Eukaryotic large nucleo-cytoplasmic DNA viruses: Clusters of orthologous genes and reconstruction of viral genome evolution
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journal
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January 2009 |
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Versatile and open software for comparing large genomes
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January 2004 |
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Community-wide analysis of microbial genome sequence signatures
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January 2009 |
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Toward almost closed genomes with GapFiller
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January 2012 |
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OrthoFinder: solving fundamental biases in whole genome comparisons dramatically improves orthogroup inference accuracy
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August 2015 |
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The standard operating procedure of the DOE-JGI Microbial Genome Annotation Pipeline (MGAP v.4)
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journal
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October 2015 |
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The analysis of translation-related gene set boosts debates around origin and evolution of mimiviruses
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journal
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February 2017 |
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Informational Gene Phylogenies Do Not Support a Fourth Domain of Life for Nucleocytoplasmic Large DNA Viruses
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journal
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June 2011 |
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MetaBAT, an efficient tool for accurately reconstructing single genomes from complex microbial communities
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journal
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January 2015 |