Datasets and Resources

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• NCBI genomes

• MetaHIT: metagenomic human microbiome database

• PATRIC: Antibiotic resistance data

• QIITA: Precomputed 16S datasets and analysis tool for microbiome data

  • QIITA quickstart guide by Jon Sanders

• Mgnify (EBI): Metagenome database with assemblies

• Earth Microbiome Project: 16S data on lots and lots of samples (animal, human, soil, freshwater, ocean etc.)

• TARA Oceans project: 16S tables etc. from lots of sites in the ocean.

• Curated metagenomes: The Waldron Lab Github contains links to many curated metagenomic datasets

• CARD: antibiotic resistance gene database

• dbCAN: carbohydrate degradation enzyme database and search engine

  • CAZY: more stuff on carbohydrate degradation enzymes

• Pubmed: search the scientific literature

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