The National Ecological Observatory Network provides ecological data from across the United States, with access requiring a NEON account or API token.
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DatasetBacteriome.org
Bacteriome.org integrates physiological and ecological data about bacteria in a searchable database.
About Bacteriome.org
Bacteriome.org is a web-based database that integrates physical protein-protein interactions and functional interactions within an E. coli knowledgebase. It provides access to a functional interaction network derived from functional genomic datasets, as well as experimentally derived protein-protein interaction networks.
Users can search the datasets with a keyword search for genes and proteins, including gene names, protein domains, and functional categories. Additional methods include Text Search, Phylogenetic Profile Search, Chromosome Coordinate Search, and BLAST Similarity. Visitors can also browse networks of complexes and functional modules across Core, Functional, and Combined datasets, and download datasets for further use. Help pages explain the different search methods.
The resource suits researchers, students, and others working with E. coli genetics, protein interactions, and functional genomics who need searchable interaction data with supporting documentation.
Key features
- Keyword search for genes, proteins, domains and functional categories
- Core network of high-quality experimental protein-protein interactions
- Extended network with additional weaker experimental evidence interactions
- Functional interaction network derived from functional genomic datasets
- Browse networks of complexes and functional modules
- Search by BLAST similarity, chromosome coordinates and phylogenetic profiles
Best for: Researchers and students studying E. coli protein interactions and functional genomics.
Good for
- Covers experimental and predicted functional interactions
- Multiple search methods including BLAST and coordinate search
- Downloadable datasets listed in navigation
- Help pages for search methods
Watch out for
- Focused on E. coli only
Bacteriome.org at a glance
- Official website
- compsysbio.org/bacteriome
- Category
- Research & Data › Open Data & Datasets
- Type
- Dataset
- Platforms
- Web
- Last checked
- Oct 5, 2026 · Online when checked
- Listed
- Oct 5, 2026
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Bacteriome.org FAQ
What is Bacteriome.org?
It is a database of physical protein-protein and functional interactions organized as an E. coli knowledgebase.
How can I search Bacteriome.org?
You can use keyword search for gene names, protein domains, or functional categories. Other options include Text Search, Phylogenetic Profile Search, Chromosome Coordinate Search, and BLAST Similarity.
What interaction networks are available?
The site offers a functional interaction network and two experimental protein-protein interaction networks: a high-quality Core network and an Extended network with less strong evidence.
Can I download data from Bacteriome.org?
Yes, the site navigation includes a Download Datasets section for accessing the datasets.
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