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Saccharomyces Genome Database provides mutant phenotype data

S. R. Engel, R. Balakrishnan, G. Binkley, K. R. Christie, M. C. Costanzo, S. S. Dwight, D. G. Fisk, J. E. Hirschman, B. C. Hitz, E. L. Hong, C. J. Krieger, M. S. Livstone (+10 others)
2009 Nucleic Acids Research  
The Saccharomyces Genome Database (SGD; http:// is a scientific database for the molecular biology and genetics of the yeast Saccharomyces cerevisiae, which is commonly known as baker's  ...  The information in SGD includes functional annotations, mapping and sequence information, protein domains and structure, expression data, mutant phenotypes, physical and genetic interactions and the primary  ...  INTRODUCTION The Saccharomyces Genome Database (SGD; http:// collects, organizes and makes scientific information regarding the genes, proteins and other chromosomal features of the  ... 
doi:10.1093/nar/gkp917 pmid:19906697 pmcid:PMC2808950 fatcat:eigs74zk4fdffeu3lljuede4oy

TRIPLES: a database of gene function in Saccharomyces cerevisiae

A. Kumar
2000 Nucleic Acids Research  
To catalog this unique data set, we have developed TRIPLES, a Web-accessible database of TRansposon-Insertion Phenotypes, Localization and Expression in Saccharomyces.  ...  Each report contains external links to corresponding entries within the Saccharomyces Genome Database and International Nucleic Acid Sequence Data Library (GenBank).  ...  Tel: +1 203 432 6139; Fax: +1 203 432 6161; Email: Saccharomyces Genome Database (SGD) (8) and GenBank (9) , thereby providing full background literature concerning all transposon-tagged  ... 
doi:10.1093/nar/28.1.81 pmid:10592187 pmcid:PMC102388 fatcat:xyvsayzbkjd2rlsz5n7tz7exda

Integration of new alternative reference strain genome sequences into theSaccharomycesgenome database

Giltae Song, Rama Balakrishnan, Gail Binkley, Maria C. Costanzo, Kyla Dalusag, Janos Demeter, Stacia Engel, Sage T. Hellerstedt, Kalpana Karra, Benjamin C. Hitz, Robert S. Nash, Kelley Paskov (+5 others)
2016 Database: The Journal of Biological Databases and Curation  
The Saccharomyces Genome Database (SGD; is the authoritative community resource for the Saccharomyces cerevisiae reference genome sequence and its annotation.  ...  To provide a wider scope of genetic and phenotypic variation in yeast, the genome sequences and their corresponding annotations from 11 alternative S. cerevisiae reference strains have been integrated  ...  SGD has served as the repository of Saccharomyces cerevisiae genomic and biological data since that time (1, 2) .  ... 
doi:10.1093/database/baw074 pmid:27252399 pmcid:PMC4888754 fatcat:wca5mblhhned7hid3dzbvxkzxi

Web Resources for Model Organism Studies

Bixia Tang, Yanqing Wang, Junwei Zhu, Wenming Zhao
2015 Genomics, Proteomics & Bioinformatics  
Significantly, the organism databases instituted in the early 1990s--such as the Mouse Genome Database (MGD), Saccharomyces Genome Database (SGD), and FlyBase--have developed into what are now comprehensive  ...  We provide a brief description for each database, as well as detail its data source and types, functions, tools, and availability of access.  ...  Saccharomyces Genome Database The Saccharomyces Genome Database (SGD) is an open-source database for querying the genetics and molecular and cellular biology of Saccharomyces cerevisiae started in 1993  ... 
doi:10.1016/j.gpb.2015.01.003 pmid:25707592 pmcid:PMC4411489 fatcat:s56qk3jnx5eq7baciz25exjsaq

TheSaccharomycesGenome Database: A Tool for Discovery

J. Michael Cherry
2015 Cold Spring Harbor Protocols  
This database is the Saccharomyces Genome Database (SGD;; Cherry et al. 2012).  ...  The Saccharomyces Genome Database (SGD) is the main community repository of information for the budding yeast, Saccharomyces cerevisiae.  ...  ACKNOWLEDGMENTS I am grateful to all the present and past staff of the Saccharomyces Genome Database project for their dedication to accuracy and their service to life science educators and researchers  ... 
doi:10.1101/pdb.top083840 pmid:26631132 pmcid:PMC5673599 fatcat:ihqfz63o35e2dmqh6fpt4kr73a

High-dimensional and large-scale phenotyping of yeast mutants

Y. Ohya, J. Sese, M. Yukawa, F. Sano, Y. Nakatani, T. L. Saito, A. Saka, T. Fukuda, S. Ishihara, S. Oka, G. Suzuki, M. Watanabe (+13 others)
2005 Proceedings of the National Academy of Sciences of the United States of America  
The Saccharomyces genome database is available at www., the GO database at, and the Saccharomyces cerevisiae Morphological Database (SCMD) at http:͞͞  ...  The obtained images of all yeast mutants and data-mining functions are available at our Saccharomyces cerevisiae Morphological Database (SCMD) web site (8, 9) .  ... 
doi:10.1073/pnas.0509436102 pmid:16365294 pmcid:PMC1316885 fatcat:w7zrrm26x5frbor5pqiagmyley

Database for High Throughput Screening Hits (dHITS): a simple tool to retrieve gene specific phenotypes from systematic screens done in yeast

Silvia G. Chuartzman, Maya Schuldiner
2018 Yeast  
To help unify and make such data accessible, we have created a Database of High Throughput Screening Hits (dHITS).  ...  However, often papers describing such screens focus on a single gene or a small set of genes and all other loci affecting the phenotype of choice ('hits') are only mentioned in tables that are provided  ...  We would like to thank the Weizmann Computing Center for help with database administration. This work was supported by an H2020 European  ... 
doi:10.1002/yea.3312 pmid:29574976 pmcid:PMC6055851 fatcat:d46l4euqbfbu7k4oioyw4b7rju

The Candida Genome Database (CGD), a community resource for Candida albicans gene and protein information

M. B. Arnaud
2004 Nucleic Acids Research  
The Candida Genome Database (CGD) is a new database that contains genomic information about the opportunistic fungal pathogen Candida albicans.  ...  phenotypes; and to summarize the function and biological context of each gene product in free-text description lines.  ...  ACKNOWLEDGEMENTS CGD thanks the Candida Annotation Working Group, especially Andre Nantel, for their generosity in sharing their entire data set and their enthusiasm for letting CGD house this resource  ... 
doi:10.1093/nar/gki003 pmid:15608216 pmcid:PMC539957 fatcat:uyutdlkpene2tjbz53prj5qcwe

Perspective: Linkage Maps, Communities of Geneticists, and Genome Databases

David Botstein
2020 Genetics  
is David Botstein of Calico Labs and Princeton University, recognizing his multiple contributions to genetics, including the collaborative development of methods for defining genetic pathways, mapping genomes  ...  These maps and the data that underlay them became the starting point for SGD (Saccharomyces Genome Database; Cherry et al. 1997) and Flybase (Ashburner and Drysdale 1994) .  ...  by the genome databases.  ... 
doi:10.1534/genetics.120.303647 pmid:33023927 fatcat:3vmppqanhjc6bbulpgranmyegy

Small open reading frames: Not so small anymore

R. Sopko
2006 Genome Research  
To date, only 28 sORFs have been reported to participate in a genetic interaction (Saccharomyces Genome Database;  ...  According to the Saccharomyces Genome Database, only 75 sORFs are reported to participate in a physical interaction with one or more other proteins.  ... 
doi:10.1101/gr.4976706 pmid:16510897 fatcat:kjdjrtblyjgzbnautfuwqh4u5u

Phenotype Data: A Neglected Resource in Biomedical Research?

Philip Groth, Bertram Weiss
2006 Current Bioinformatics  
We discuss hurdles yet to be overcome, i.e. the lack of data integration, the missing adequate phenotype ontologies and the shortage of appropriate analytical tools.  ...  As in other scientific areas, data integration is a key problem.  ...  Saccharomyces cerevisiae PROPHECY-Profiling of Phenotypic Characteristics in Yeast SGD-Saccharomyces Genome Database CYGD-Comprehensive Yeast Genome Database http  ... 
doi:10.2174/157489306777828008 fatcat:kkgtcwoluzc7xlt7uwpp5k7zyu

Saccharomyces genome database informs human biology

Marek S Skrzypek, Robert S Nash, Edith D Wong, Kevin A MacPherson, Sage T Hellerstedt, Stacia R Engel, Kalpana Karra, Shuai Weng, Travis K Sheppard, Gail Binkley, Matt Simison, Stuart R Miyasato (+1 others)
2017 Nucleic Acids Research  
The Saccharomyces Genome Database (SGD; http: // is an expertly curated database of literature-derived functional information for the model organism budding yeast, Saccharomyces cerevisiae  ...  These data are manually curated from published literature, made available for download, and incorporated into a variety of analysis tools provided by SGD.  ...  The content is solely the responsibility of the authors and does not necessarily represent the official views of the National Human Genome Research Institute or the National Institutes of Health.  ... 
doi:10.1093/nar/gkx1112 pmid:29140510 pmcid:PMC5753351 fatcat:bzd2jvlocnbqpbczmgoofs3tmi

PROPHECY--a yeast phenome database, update 2006

L. Fernandez-Ricaud, J. Warringer, E. Ericson, K. Glaab, P. Davidsson, F. Nilsson, G. J. L. Kemp, O. Nerman, A. Blomberg
2007 Nucleic Acids Research  
of mutants compared with the wild type are easily revealed.  ...  Our yeast phenomics database PROPHECY is available at  ...  An improved phenotype summary page The Saccharomyces Genome Database (SGD) is a very important centralized information resource for the yeast community ( (6).  ... 
doi:10.1093/nar/gkl1029 pmid:17148481 pmcid:PMC1761427 fatcat:rvyucgx76vcolcp7mcbfgampum

Genetic and physical maps of Saccharomyces cerevisiae

J M Cherry, C Ball, S Weng, G Juvik, R Schmidt, C Adler, B Dunn, S Dwight, L Riles, R K Mortimer, D Botstein
1997 Nature  
The data for the maps are accessible electronically from the Saccharomyces Genome Database (SGD: http://genome-www.stanford. edu/Saccharomyces/).  ...  Genetic and physical maps for the 16 chromosomes of Saccharomyces cerevisiae are presented. The genetic map is the result of 40 years of genetic analysis.  ...  The information in this figure is available on the Saccharomyces Genome Database ( The physical map consists of coloured boxes that indicate ORFs.  ... 
pmid:9169866 pmcid:PMC3057085 fatcat:h3hsdixk6bctxfqozsn2523zli

Draft Genome Sequence of NYR20, a Red Pigment-Secreting Mutant of Saccharomyces cerevisiae

Hiro Takahashi, Shin-ichi Iwaguchi, Hisashi Kondo, Taichiro Motomura, Masataka Murase, Anna Takahashi, Shuichi Fukuyoshi, Chiyoko Machida, Shin Kanamasa, Satoru Yamamoto, Takayuki Yoshizaki, Antonis Rokas
2021 Microbiology Resource Announcements  
A Saccharomyces cerevisiae mutant strain, NYR20, produces a red pigment owing to adenine auxotrophy.  ...  Here, we report the NYR20 draft genome sequence, thereby advancing our understanding of pigment secretion mechanisms.  ...  These data can provide insights into the genetic basis of the red coloration observed when NYR20 is used for brewing. Data availability.  ... 
doi:10.1128/mra.01161-20 pmid:33414305 fatcat:edstmp55vbf4pd7arqbv5eaacm
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