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tRNAscan-SE: Searching for tRNA Genes in Genomic Sequences
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book
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January 2019 |
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Mass shifts induced by negative frequency peaks in linearly polarized Fourier transform ion cyclotron resonance signals
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journal
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December 1988 |
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MASIC: A software program for fast quantitation and flexible visualization of chromatographic profiles from detected LC–MS(/MS) features
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journal
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June 2008 |
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Microbiome Data Science: Understanding Our Microbial Planet
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journal
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June 2016 |
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A Statistical Model for Identifying Proteins by Tandem Mass Spectrometry
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journal
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September 2003 |
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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 |
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KBase: The United States Department of Energy Systems Biology Knowledgebase
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journal
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July 2018 |
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MS-GF+ makes progress towards a universal database search tool for proteomics
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journal
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October 2014 |
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A multi-omic future for microbiome studies
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journal
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April 2016 |
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High throughput ANI analysis of 90K prokaryotic genomes reveals clear species boundaries
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journal
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November 2018 |
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Short- and long-read metagenomics expand individualized structural variations in gut microbiomes
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journal
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June 2022 |
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The National Microbiome Data Collaborative: enabling microbiome science
|
journal
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April 2020 |
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CheckV assesses the quality and completeness of metagenome-assembled viral genomes
|
journal
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December 2020 |
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The FAIR Guiding Principles for scientific data management and stewardship
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journal
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March 2016 |
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Buying in to bioinformatics: an introduction to commercial sequence analysis software
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journal
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September 2014 |
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EDGE COVID-19: a web platform to generate submission-ready genomes from SARS-CoV-2 sequencing efforts
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journal
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March 2022 |
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ProteoWizard: open source software for rapid proteomics tools development
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journal
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July 2008 |
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The Sequence Alignment/Map format and SAMtools
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journal
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June 2009 |
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Infernal 1.1: 100-fold faster RNA homology searches
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journal
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September 2013 |
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GTDB-Tk: a toolkit to classify genomes with the Genome Taxonomy Database
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journal
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November 2019 |
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rnaSPAdes: a de novo transcriptome assembler and its application to RNA-Seq data
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journal
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September 2019 |
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The Sequence Read Archive: a decade more of explosive growth
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journal
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November 2021 |
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The IMG/M data management and analysis system v.7: content updates and new features
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journal
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November 2022 |
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Incorporating sequence quality data into alignment improves DNA read mapping
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journal
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January 2010 |
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The Sequence Read Archive
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journal
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November 2010 |
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HMMER web server: interactive sequence similarity searching
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journal
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May 2011 |
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Accurate read-based metagenome characterization using a hierarchical suite of unique signatures
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journal
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March 2015 |
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Enabling the democratization of the genomics revolution with a fully integrated web-based bioinformatics platform
|
journal
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November 2016 |
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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 |
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Centrifuge: rapid and sensitive classification of metagenomic sequences
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journal
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October 2016 |
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metaSPAdes: a new versatile metagenomic assembler
|
journal
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March 2017 |
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Modeling leaderless transcription and atypical genes results in more accurate gene prediction in prokaryotes
|
journal
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May 2018 |
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DOE JGI Metagenome Workflow
|
journal
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June 2021 |
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Prodigal: prokaryotic gene recognition and translation initiation site identification
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journal
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March 2010 |
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pplacer: linear time maximum-likelihood and Bayesian phylogenetic placement of sequences onto a fixed reference tree
|
journal
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October 2010 |
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Interactive metagenomic visualization in a Web browser
|
journal
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September 2011 |
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CRISPR Recognition Tool (CRT): a tool for automatic detection of clustered regularly interspaced palindromic repeats
|
journal
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June 2007 |
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Mash: fast genome and metagenome distance estimation using MinHash
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journal
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June 2016 |
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Improved metagenomic analysis with Kraken 2
|
journal
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November 2019 |
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CyVerse: Cyberinfrastructure for open science
|
journal
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February 2024 |
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FastTree 2 – Approximately Maximum-Likelihood Trees for Large Alignments
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journal
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March 2010 |
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Challenges in Bioinformatics Workflows for Processing Microbiome Omics Data at Scale
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journal
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January 2022 |
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MetaBAT 2: an adaptive binning algorithm for robust and efficient genome reconstruction from metagenome assemblies
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journal
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January 2019 |