SGD statistics

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Citations per year

Number of citations per year for the bioinformatics software tool SGD
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Tool usage distribution map

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Associated diseases

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Protocols

SGD specifications

Information


Unique identifier OMICS_01661
Name SGD
Alternative name Saccharomyces Genome Database
Restrictions to use None
Community driven Yes
Data access File download, Browse
User data submission Allowed
Maintained Yes
Wikipedia https://en.wikipedia.org/wiki/Saccharomyces_Genome_Database

Taxon


  • Plants and Fungi
    • Saccharomyces cerevisiae

Subtools


  • Genome Snapshot
  • Yeast phenotype ontology

Maintainers


  • person_outline YeastMine Team
  • person_outline J. Michael Cherry

Additional information


http://wiki.yeastgenome.org/index.php/Main_Page

Publications for Saccharomyces Genome Database

SGD citations

 (364)
library_books

Network inference reveals novel connections in pathways regulating growth and defense in the yeast salt response

2018
PLoS Comput Biol
PMCID: 5940180
PMID: 29738528
DOI: 10.1371/journal.pcbi.1006088

[…] The raw data corresponding to TMT-labelled peptides were searched against Saccharomyces genome database (SGD) of yeast protein isoforms (downloaded 12.02.2014) and processed using the COMPASS software suite [], with FDR correction at the peptide and protein level (<1%). TMT […]

library_books

Nuclear fate of yeast snoRNA is determined by co transcriptional Rnt1 cleavage

2018
Nat Commun
PMCID: 5934358
PMID: 29725044
DOI: 10.1038/s41467-018-04094-y

[…] S. cerevisiae genome, scaCer3 (April 2011) was downloaded from UCSC (http://hgdownload-test.cse.ucsc.edu/goldenPath/sacCer3). Gene boundaries were obtained from the Saccharomyces Genome Database (SGD, http://www.yeastgenome.org/) for the same version.Mapping RNA-seq sequencing reads: For Ion Torrent RNA-seq sequencing, single-end reads were mapped to sacCer3 geno […]

call_split

The Penicillium chrysogenum transporter PcAraT enables high affinity, glucose insensitive l arabinose transport in Saccharomyces cerevisiae

2018
Biotechnol Biofuels
PMCID: 5848512
PMID: 29563966
DOI: 10.1186/s13068-018-1047-6
call_split See protocol

[…] Protein sequences used for generation of a phylogenetic tree were derived from NCBI (https://www.ncbi.nlm.nih.gov/) and the Saccharomyces Genome Database (https://www.yeastgenome.org/). Mafft was used to generate a CLUSTAL format alignment of all sequences, using the L-INS-i method default settings (https://mafft.cbrc.jp/a […]

library_books

Large scale profiling of noncoding RNA function in yeast

2018
PLoS Genet
PMCID: 5864082
PMID: 29529031
DOI: 10.1371/journal.pgen.1007253

[…] the open source version of Shiny-server. The underlying server-side data processing is written in R [], version 3.4.0. Lists and positions of chromosomal features in S. cerevisiae are taken from the Saccharomyces Genome Database (www.yeastgenome.org). The type of features included are: known opening reading frames, tRNA genes, snoRNA genes, centromeric and telomeric regions, autonomous replicatin […]

library_books

Chemical signaling and insect attraction is a conserved trait in yeasts

2018
Ecol Evol
PMCID: 5838033
PMID: 29531709
DOI: 10.1002/ece3.3905

[…] ated with flowers but studies discriminating between plant‐ and microbe‐derived metabolites are rare (Lenaerts et al., ). The Pherobase was also consulted for behavioral activity of floral odors. The Saccharomyces Genome Database (SGD) using WU‐BLAST2 was consulted for the reciprocal BLAST search. […]

call_split

Adaptability of the Saccharomyces cerevisiae yeasts to wine fermentation conditions relies on their strong ability to consume nitrogen

2018
PLoS One
PMCID: 5809068
PMID: 29432462
DOI: 10.1371/journal.pone.0192383
call_split See protocol

[…] ettings and a phred score cut-off of 30 (http://www.usadellab.org/cms/?page=trimmomatic). RNA-seq reads were then aligned to the S288c reference (S. cerevisiae genome obtained on 03/03/2016, from the Saccharomyces Genome Database, FTP SITE: http://downloads.yeastgenome.org/sequence/S288C_reference/genome_releases/ corresponding to a stable release from January 2015) using TopHat with default score […]


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SGD institution(s)
Department of Genetics, Stanford University, Stanford, CA, USA
SGD funding source(s)
Supported by a grant from the National Human Genome Research Institute at the United States National Institutes of Health [U41 HG001315].

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