BioGRID TAB 2.0 Formatted Downloads
The BioGRID TAB 2.0 format is a custom BioGRID format that is designed to provide the entirety of our curation efforst in a format that is simple to read in Microsoft Excel or to script into Bioinformatics applications. All Columns are separated by tabulations.
BioGRID Tab 2.0 files are denoted by the extension .tab2.txt or .tab2.zip
The first line of a BioGRID Tab 2.0 file is the heading line and starts with a hash (#). This line is purely for informational purposes and gives a brief description of the content contained in each column. If you are scripting the use of this file, you can simply ignore it.
The column contents of BioGRID Tab 2.0 files should be as follows:
- BioGRID Interaction ID. A unique identifier for each interaction within the BioGRID database.
- Entrez Gene ID for Interactor A. The identifier from the Entrez-Gene database that corresponds to Interactor A.
- Entrez Gene ID for Interactor B. Same structure as column 2.
- BioGRID ID for Interactor A. The identifier in the BioGRID database that corresponds to Interactor A. These identifiers are best used for creating links to the BioGRID from your own websites or applications. To link to a page within our site, simply append the URL: http://www.thebiogrid.org/ID/ to each ID. For example, http://www.thebiogrid.org/31623/.
- BioGRID ID for Interactor B. Same structure as column 4.
- Systematic name for Interactor A. A plain text systematic name if known for interactor A. Will be a ”-” if no name is available.
- Systematic name for Interactor B. Same structure as column 6.
- Official symbol for Interactor A. A common gene name/official symbol for interactor A. Will be a ”-” if no name is available.
- Official symbol for Interactor B. Same structure as column 8.
- Synonyms/Aliases for Interactor A. A “|” separated list of alternate identifiers for interactor A. Will be ”-” if no aliases are available.
- Synonyms/Aliases for Interactor B. Same stucture as column 10.
- Experimental System Name. One of the many Experimental Evidence Codes supported by the BioGRID.
- Experimental System Type. This will be either “physical” or “genetic” as a classification of the Experimental System Name.
- First author surname of the publication in which the interaction has been shown, optionally followed by additional indicators, e.g. Stephenson A (2005)
- Pubmed ID of the publication in which the interaction has been shown.
- Organism ID for Interactor A. This is the NCBI Taxonomy ID for Interactor A.
- Organism ID for Interactor B. Same structure as 16.
- Interaction Throughput. This will be either High Throughput, Low Throughput or Both (separated by “|”).
- Quantitative Score. This will be a positive for negative value recorded by the original publication depicting P-Values, Confidence Score, SGA Score, etc. Will be ”-” if no score is reported.
- Post Translational Modification. For any Biochemical Activity experiments, this field will be filled with the associated post translational modification. Will be ”-” if no modification is reported.
- Phenotypes. If any phenotype info is recorded, it will be provided here separated by “|”. Each phenotype will be of the format <phenotype>[<phenotype qualifier>]:<phenotype type>. Note that the phenotype types and qualifiers are optional and will only be present where recorded. Phenotypes may also have multiple qualifiers in which case unique qualifiers will be separated by carat (^). If no phenotype information is available, this field will contain ”-”.
- Qualifications. If additional plain text information was recorded for an interaction, it will be listed with unique qualifiers separated by “|”. If no qualification is available, this field will contain ”-”.
- Tags. If an interaction has been tagged with additional classifications, they will be provided in this column separated by “|”. If no tag information is available, this field will contain ”-”.
- Source Database. This field will contain the name of the database in which this interaction was provided.
All columns are mandatory so columns with no values are filled with ”-“