Specification for New Interactions and Phenotype FTP files
SGD is planning on releasing new interfaces to view physical and genetic interactions as well as new interfaces to view newly curated phenotype data. In order to provide these data in a convenient format to the scientific community, SGD is proposing two new FTP files to replace the current FTP files.
The new file will be located in the following directory:
And will replace this file:
The new interactions_data.tab file will be available the week of July 14, 2008.
The old interactions.tab file will no longer be updated after July 14, 2008. It will be removed from the FTP directory October 31, 2008.
|Column number||Type of data||Contents||Required or Optional|
|1||Feature Name (Bait)||The feature name of the gene used as the bait||Required|
|2||Standard Gene Name (Bait)||The standard gene name of the gene used as the bait||Optional|
|3||Feature Name (Hit)||The feature name of the gene that interacts with the bait||Required|
|4||Standard Gene Name (Hit)||The standard gene name of the gene that interacts with the bait||Optional|
|5||Experiment Type||A description of the experimental used to identify the interaction||Required|
|6||Genetic or Physical Interaction||Indicates whether the experimental method is a genetic or physical interaction||Required|
|7||Source||Lists the database source for the interaction||Required|
|8||Manually curated or High-throughput||Lists whether the interaction was manually curated from a publication or added as part of a high-throughput dataset||Required|
|9||Notes||Free text field that contains additional information about the interaction||Optional|
|10||Phenotype||Contains the phenotype of the interaction||Optional|
|11||Reference||Lists the identifiers for the reference as an SGDID (SGD_REF:) or a PubMed ID (PMID:)||Required|
|12||Citation||Lists the citation for the reference||Required|