Curated Data

 

Literature Curated Data

Files with information curated or otherwise assembled by the SGD staff.

Name Description README
[TXT] biochemical_pathways.tab Biochemical pathway data in SGD [TXT]
[ ] gene_association.sgd.gz Gene Ontology (GO) annotations for yeast genes [TXT]
[TXT] gene_literature.tab Literature Guide info. for references in SGD [TXT]
[TXT] go_protein_complex_slim.tab The mapping of yeast gene products (protein or RNA) to the Macromolecular Complex GO-Slim term set [TXT]
[TXT] go_slim_mapping.tab The mapping of yeast gene products (protein or RNA)
to GO-Slim terms (function, process and component)		 [TXT]
[TXT] go_terms.tab GO terms and their definitions [TXT]
[TXT] interaction_data.tab Interaction data incorporated into SGD from BioGRID [TXT]
[TXT] phenotype_data.tab Curated phenotype data in SGD readme-icon
[ ] yeastcyc15_201112.tar.gz All the files required to install Yeast Biochemical Pathways using the Pathway Tools software  

 

Chromosomal Features

Files with information about S. cerevisiae chromosomal features annotated in SGD.

Name Description README
[TXT] SGD_CDS_xref.txt SGD cross references for CDS entries in GenBank, EMBL and DDBJ. [TXT]
[TXT] SGD_features.tab Chromosomal features in SGD, including coordinates and subfeatures. [TXT]
[TXT] chromosome_length.tab Lengths of the chromosomes, with RefSeq identifiers [TXT]
[TXT] clone.tab Information on yeast clones (Wash U., St. Louis, and ATCC) [TXT]
[TXT] dbxref.tab Mapping file between ORF names, SGDIDs and external identifiers [TXT]
[TXT] deleted_merged_features.tab List of deleted or merged chromosomal features  
[TXT] genetic_map.tab Genetic mapping data submitted to SGD [TXT]
[TXT] saccharomyces_cerevisiae.gff Genomic sequence features including coordinates, GO annotations and descriptions. Used to load GBrowse. [TXT]
[TXT] scerevisiae_clonedata.gff Information on yeast clones (Wash U., St. Louis, and ATCC) in Generic Feature Format Version 3 (gff3) [TXT]

 

Calculated Protein Information

Files with basic information about the proteins and hypothetical peptides encoded by the S. cerevisiae genome.

[ICO] Name Description README
[TXT] domains.tab Results of an InterProScan using each S. cerevisiae protein sequence to query for domains/motifs from several databases. [TXT]
[TXT] protein_properties.tab Basic protein information about each ORF in SGD  [TXT]
[DIR] hypothetical_peptides/ This directory contains files of all possible peptides of 20 amino acids or greater for each of the 16 nuclear chromosomes and the mitochondrial chromosome; the files are ordered by S. cerevisiae chromosome number. [TXT]