License BioCyc Data Files

For each BioCyc database (DB), we provide a collection of data files in multiple formats to allow you to obtain files in a format that is best suited to your needs. All formats provided are ASCII text files.

Note that Pathway Tools licensees can generate flat file versions of any PGDB using the Pathway/Genome Navigator commands under File > Export.

Data File Format Specification

Click here for a listing of all files provided and their formats.

Execute the License

Click here to proceed with the click-through license agreement.

Specify List of Organism Databases

Organism Filter:

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Search for taxon in taxonomy tree:

Find organism databases according to:

Organism characteristics, e.g. pathogenicity = human
Collection metadata, e.g. human microbiome body site = blood
Database properties, e.g. # (number) of Genes < 500

Database lists include both predefined lists and lists that are saved as SmartTables that you can edit from your My SmartTables page. To add all organisms from a saved list, check the box next to the list name and then click the "Add" button.

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A colored background indicates a Tier 1 or Tier 2 curated database.

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Remember Selection as SmartTable: Create New Update Existing

Note: if you create a user account and log in, you can save your database lists for next time.