Donovan H. Parks
- GTDB: an ongoing census of bacterial and archaeal diversity through a phylogenetically consistent, rank normalized and complete genome-based taxonomy
2021/09/08 by Donovan H Parks, Donovan H. Parks, Maria Chuvochina +5 · 164 citations
Agricultural and Biological Sciences · Biochemistry, Genetics and Molecular Biology · Environmental Science · #Genomics and Phylogenetic Studies #Microbial Community Ecology and Physiology #Probiotics and Fermented Foods
- GTDB-Tk v2: memory friendly classification with the genome taxonomy database
2022/10/07 by Pierre-Alain Chaumeil, Aaron J. Mussig, Philip Hugenholtz +1 · 103 citations
Biochemistry, Genetics and Molecular Biology · Environmental Science · #Genomics and Phylogenetic Studies #Gut microbiota and health #Microbial Community Ecology and Physiology
- CheckM2: a rapid, scalable and accurate tool for assessing microbial genome quality using machine learning
2023/07/27 by Alex Chklovski, Donovan H. Parks, Ben J. Woodcroft +1 · 96 citations
Biochemistry, Genetics and Molecular Biology · Environmental Science · #Genomics and Phylogenetic Studies #Gut microbiota and health #Microbial Community Ecology and Physiology
- A complete domain-to-species taxonomy for Bacteria and Archaea
2020/04/27 by Donovan H. Parks, Maria Chuvochina, Pierre-Alain Chaumeil +3 · 45 citations
Agricultural and Biological Sciences · Biochemistry, Genetics and Molecular Biology · #Genomics and Phylogenetic Studies #Legume Nitrogen Fixing Symbiosis #Probiotics and Fermented Foods
- A unified catalog of 204,938 reference genomes from the human gut microbiome
2020/07/20 by Alexandre Almeida, Stephen Nayfach, Miguel Boland +10 · 35 citations
Agricultural and Biological Sciences · Biochemistry, Genetics and Molecular Biology · Medicine · #Clostridium difficile and Clostridium perfringens research #Gut microbiota and health #Probiotics and Fermented Foods
- SeqCode: a nomenclatural code for prokaryotes described from sequence data
2022/09/19 by Brian P. Hedlund, Maria Chuvochina, Philip Hugenholtz +11 · 2 voices · 22 citations
Biochemistry, Genetics and Molecular Biology · Environmental Science · #Genomics and Phylogenetic Studies #Microbial Community Ecology and Physiology #Bacterial Identification and Susceptibility Testing
- Greengenes2 unifies microbial data in a single reference tree
2023/07/27 by Daniel McDonald, Yueyu Jiang, Metin Balaban +22 · 1 voice · 22 citations
Biochemistry, Genetics and Molecular Biology · Environmental Science · #Gut microbiota and health #Microbial Community Ecology and Physiology #Species Distribution and Climate Change
- GenomeFISH: genome-based fluorescence <i>in situ</i> hybridization for strain-level visualization of microbial communities
2025/01/01 by J Pamela Engelberts, Jun Ye, Donovan H. Parks +6 · 2 voices
Biochemistry, Genetics and Molecular Biology · Medicine · #Genomics and Phylogenetic Studies #Tracheal and airway disorders #Mycobacterium research and diagnosis