Saccharomyces Genome Database (SGD) provides tools to identify and analyze sequences from Saccharomyces cerevisiae and related sequences from other organisms

By Karen R. Christie, S. Weng, R. Balakrishnan, M. Costanzo, Kara Dolinski, S. Dwight, S. Engel, B. Feierbach, D. Fisk, J. Hirschman and 13 more. Nucleic Acids Res., 2004

324 citations recorded by the source corpus.

Subfields: Food Science, Molecular Biology

View Paper: https://www.semanticscholar.org/paper/cdf4c6284128c7d06fb8f682ae73aecb71e84c48

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Citations in the corpus

• Expansion of the BioCyc collection of pathway/genome databases to 160 genomes (2005, background): “Often called model organism databases, or organism-specific databases, examples include EcoCyc for Escherichia coli (1), PseudoCyc for Pseudomonas aeruginosa (2), PlasmoCyc for Plasmodium falciparum (3), SGD for Saccharomyces cerevisiae (4), TAIR for Arabidopsis thaliana (5), MGD for Mus musculus (m”
• Evolutionarily conserved elements in vertebrate, insect, worm, and yeast genomes. (2005, methodology): “cerevisiae, known genes from the Saccharomyces Genome Database (SGD) (Christie et al. 2004) were used.”
• The MetaCyc database of metabolic pathways and enzymes and the BioCyc collection of Pathway/Genome Databases (2013, methodology): “More than 250 groups have used Pathway Tools and MetaCyc to create PGDBs for their organisms of interest, including important model organisms such as Saccharomyces cerevisiae (5), Arabidopsis thaliana (6), Oryza sativa (7), Mus musculus (8), Bos taurus (9), Medicago truncatula (10), Populus trichoca”
• The MetaCyc database of metabolic pathways and enzymes and the BioCyc collection of pathway/genome databases (2009, methodology): “More than 100 groups have used Pathway Tools and MetaCyc to create PGDBs for their organisms of interest, including important model organisms such as Saccharomyces cerevisiae (5), Arabidopsis thaliana (6), Oryza sativa (7), Mus musculus (8), Bos taurus (9), Medicago truncatula (10), Populus trichoca”
• Annotation transfer between genomes: protein-protein interologs and protein-DNA regulogs. (2004, background): “Our database also links each protein to an external Web resource such as SGD (Christie et al. 2004), WormBase (Harris et al. 2004), or FlyBase (The FlyBase Consortium 2002).”
• The MetaCyc Database of metabolic pathways and enzymes and the BioCyc collection of Pathway/Genome Databases (2007, methodology): “Aromatic Compounds Biosynthesis (13) Siderophore Biosynthesis (7) Metabolic Regulators Biosynthesis (4) Aminoacyl-tRNA Charging ( 4 )”
• The FunCat, a functional annotation scheme for systematic classification of proteins from whole genomes. (2004, methodology): “cerevisiae is ideally suited since the protein complement of this organism is well characterized by two groups, MIPS and the Saccharomyces Genome Database (SGD) (42) that use those different schemes for annotation.”
• PathBLAST: a tool for alignment of protein interaction networks (2004, background): “When available, each aligned protein is hyperlinked to its corresponding functional annotations drawn from the relevant genome database [i.e. the Saccharomyces Genome Database (22)] for queries against the yeast network, and so on).”
• CYGD: the Comprehensive Yeast Genome Database (2004, methodology): “Recently, the functional classification was updated by mapping the latest GO annotation onto FunCat categories ( 8 ).”
• Genomic analysis of regulatory network dynamics reveals large topological changes (2004, background): “) In all cases, regulatory functions are obtained from the Saccharomyces Genome Databas”