SGD.SL {SLGI} | R Documentation

## Interaction data from the Saccharomyces Genome Database

### Description

The Saccharomyces Genome Database (SGD) provides, for download a table listing all known interactions in yeast. This table was downloaded on Jan 25, 2007 and three subsets were extracted. The synthetic lethal interactions, `SGD.SL`, the synthetic grow defect interactions, `SGD.SynGrowthDefect` and the synthetic rescue interactions, `SGD.SynRescue`. No other processing has been done.

### Usage

      data(SGD.SL)
      data(SGD.SynRescue)
      data(SGD.SynGrowthDefect)

### Format

Each data set is a data frame with the following 7 variables.

`V1`
  Factor, indicating the type of data.
`V2`
  Factor describing the interaction, in particular naming bait and prey and interactors.
`V3`
  Factor indicating whether the cells were viable.
`V4`
  Factor which is always NA for these data.
`V5`
  Factor naming the reference for the interaction.
`V6`
  Factor with levels indicating the PubMed ID for the publication in V5.
`V7`
  Factor with level `BioGRID`, probably indicating the source.

### Details

SGD says this about the file:

    Contains interaction data.  Tab-separated columns are:
    1) interaction_type (mandatory)
    2) genes involved and their mutation type, in the format: ORF
    (mutation_type, action), with multiples separated by a |
    3) phenotype (optional, multiples separated by |)
    4) description (optional)
    5) citation (multiples separated by |)
    6) PubMed ID (optional, multiples separated by |)

    This file is updated weekly.

### Author(s)

Z. Jiang

### Source

The file can be downloaded from, ftp://genome-ftp.stanford.edu/pub/yeast/literature_curation.

### Examples

    data(SGD.SL)

[Package SLGI version 1.4.0 Index]