1. Saccharomyces Genome Database Commonly known as baker's or budding yeast. Includes sequence analysis and tools, maps, literature, Category Science Biology Eukaryotic Fungal saccharomyces...... SGD TM is a scientific database of the molecular biology and genetics of the yeastsaccharomyces cerevisiae, which is commonly known as baker's or budding yeast http://genome-www.stanford.edu/Saccharomyces/

Quick Search: Site Map Help Full Search Home ... and more SGD TM is a scientific database of the molecular biology and genetics of the yeast Saccharomyces cerevisiae, which is commonly known as baker's or budding yeast. New and Noteworthy Hardware upgrade at SGD SGD has upgraded to a new computer. This transition should be transparent; however, as always, if you find any problems, please let us know by sending mail to yeast-curator@genome.stanford.edu . (Posted March 20, 2003) Literature curation news New papers added to SGD this week. View Genome-wide Analysis papers in SGD. Do a literature search Table of Gene Summary Paragraphs (new ones highlighted yellow). Table of Community Annotations Earn a "Superbud" T-shirt This is your chance to get one of the "Superbud" T-shirts modeled by SGD at last summer's Yeast Genetics and Molecular Biology Meeting in Madison, Wisconsin. During the next 4 months, SGD will award "Superbud" T-shirts to 100 researchers (25/month) who contribute community annotations to our site. Recipients will be selected randomly from each month's contingent of "Community Annotators" and will be posted on our homepage (limit 1 shirt/researcher). To see an excellent example of Community Annotation, Look at the

2. Saccharomyces Bayanus Two SEM micrographs of cells of this yeast, with a brief discussion of yeast biology. http://distans.livstek.lth.se:2080/S_bayan.htm

Saccharomyces bayanus As yeasts, i.e. microorganisms which ferment sugar and convert it into ethanol and carbon dioxide, Saccharomyces bayanus is used in winemaking. A long list of yeasts may be found in the National Collection of Yeast Cultures. Saccharomyces bayanus has several synonyms such as Saccharomyces abuliensis, Saccharomyces globosus, Saccharomyces heterogenicus, etc. Saccharomyces bayanus (Lalvin EC-1118) are yeasts ideal to make some special, particularly sparkling, wines. S. bayanus inhibit wild yeasts, restart stuck fermentations, and are tolerant to alcohol concentrations up to 18%. Other specific yeast strains are for red quality wines. If there is an art to winemaking, then it is the art of controlling yeast . There are thousands of types of yeast - of those only 250 will produce fermentation, and only 24 of those are "good" yeasts. Various terms used in enology, including "yeast ecology" are listed in a glossary. More links to brewing: An ongoing site with articles and links on brewing as it applies to the Middle Ages. Medieval Brewers Home Page.

3. Stanford Genomic Resources Provides links to various systematic analysis projects, resources, laboratories, and departments at Category Science Biology Genetics Eukaryotic...... It is maintained by the saccharomyces Genome Database within the School ofMedicine. Database Resources. SGD, saccharomyces Genome Database. http://genome-www.stanford.edu/

Stanford Genomic Resources This page provides links to various systematic analysis projects, resources, laboratories, and departments at Stanford University . It is maintained by the Saccharomyces Genome Database within the School of Medicine Database Resources Saccharomyces Genome Database Stanford Microarray Database PharmGKB ... Database) Stanford Genome Centers Stanford Human Genome Center (SHGC) Stanford Genome Technology Center Stanford Genomic Projects Stanford Functional Genomics Facility (SFGF) Gene Ontology (GO) Consortium Stanford Genomics Breast Cancer Consortium Portal Human Radiation Hybrid Map Server ... Genome Deletion Project Published Datasets (Stanford) S.cerevisiae C. elegans Human All organisms Software Resources Microarray Software Genomic Research Departments Genetics Biological Sciences Biochemistry Developmental Biology Mirrored Resources GeneCards v2.26u1 VectorDB WebMiner New Items Alter O, et al. (2003) Generalized singular value decomposition for comparative analysis of genome-scale expression data sets of two different organisms. Proc Natl Acad Sci USA 100(6):3351-3356 Higgins JP, et al. (2003) Gene expression patterns in renal cell carcinoma assessed by complementary DNA microarray. Am J Pathol 162(3):925-32 Whitney AR, et al. (2003) Individuality and variation in gene expression patterns in human blood. Proc Natl Acad Sci U S A 100(4):1896-901 Bohen SP, et al. (2003) Variation in gene expression patterns in follicular lymphoma and the response to rituximab. Proc Natl Acad Sci U S A 100(4):1926-30 ... Enter here for previous Web Supplements Organism-limited sets are also available from the

4. YeastDeletionWebPages Dear Colleagues, Happy New Year and welcome to the saccharomyces GenomeDeletion Project web page. The purpose of this page is to http://www-sequence.stanford.edu/group/yeast_deletion_project/deletions3.html

Deletion Page Home Databases and Datasets FAQs Deletion Strains Available ... Yeast Deletion Database (consortium members only) Dear Colleagues, Happy New Year and welcome to the Saccharomyces Genome Deletion Project web page. The purpose of this page is to communicate protocols, methods and information about the project. Please let us know what information you would like to see included or suggest useful links. Project Overview The Saccharomyces Genome Project has revealed the presence of more than 6000 open reading frames (ORFs) in the S. cerevisiae genome. Approximately one third of these ORFs currently have no known function four years after their discovery. The goal of the Saccharomyces Genome Deletion Project is to generate as complete a set as possible of yeast deletion strains with the overall goal of assigning function to the ORFs through phenotypic analysis of the mutants. The method used was a PCR-based gene deletion strategy to generate a start- to stop- codon deletion of each of the ORFs in the yeast genome. As part of the deletion process, each gene disruption was replaced with a KanMX module and uniquely tagged with one or two 20mer sequence(s) . The presence of the tags can be detected via hybridization to a high-density oligonucleotide array, enabling growth phenotypes of individual strains to be analyzed in parallel .

5. CYGD Contains a vast amount of information on the saccharomyces cerevisiae (brewer's yeast) genome including sequences and search tools. http://www.mips.biochem.mpg.de/proj/yeast

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6. Saccharomyces Cerevisiae Microscopic image of bread yeast. http://www.dipbot.unict.it/sistematica/Saccharom.html

Eumycota Ascomycetes Saccharomycetales Saccharomycetaceae Saccharomyces cerevisiae Cellule di lievito in gemmazione. Torna alla pagina iniziale Indice Funghi Indice Ascomycetes

7. SCPD SCPD The Promoter Database of saccharomyces cerevisiae. Genes Explorethe promoter regions of ~6000 genes and ORFs in yeast genome http://cgsigma.cshl.org/jian/

SCPD The Promoter Database of Saccharomyces cerevisiae Genes : Explore the promoter regions of ~6000 genes and ORFs in yeast genome Provide information on genes with mapped regulatory regions Annotate putative regulatory sites of all genes and ORFs Locate intergenic regions Retrieve sequence of the promoter region Regulatory elements and transcriptional factors Provide information on transcriptionally related genes Matrix and Consensus sequence Correlation between elements Binding affinity and expression Genomewise distribution List of transcription factors by categories List of transcription factors by names Analysis tools Retrieve promoter sequences Search existing motifs Search putative regulatory elements Using predefined matrix and consensus Using self-defined consensus Using self-defined matrix Group genes according to function categories ... Multisequence alignment by GibbsDNA Submit records to SCPD Submit a gene record Submit a consensus record Submit a matrix record Miscellaneous features Documentation Collection of binding affinity and expression data Links TRANSFAC TFD TRRD SGD ... zhuj@cshl.org

8. Arlen Johnson Lab: Home Page A member of the Institute for Cellular and Molecular Biology. Research concerns mRNA degradation as a mechanism of translational control in the yeast saccharomyces cerevisiae. http://www.utexas.edu/research/rnadecay/

Lab Interests From left to right: Ivy Hung, Arlen Johnson, John Hedges, Alice Wang, Matt West Former lab members Positions Available This page last updated: Saturday, November 23, 2002 Webmaster: Justin Brown contact us

9. Yeast Sequencing Center (formerly known as Stanford DNA Sequencing and Technology Center) has finishedsequencing on the budding yeast saccharomyces cerevisiae, chromosomes IV http://www-sequence.stanford.edu/group/yeast/

Stanford Genome Technology Center Yeast Sequencing Completed The Stanford Genome Technology Center (formerly known as Stanford DNA Sequencing and Technology Center) has finished sequencing on the budding yeast Saccharomyces cerevisiae, chromosomes IV (right arm only), V, and portions of XVI. The completed sequences of chromosomes IV, V and XVI are available from GenBank. Home Technology Development Functional Analysis Informatics ... wwwadmin@sequence.stanford.edu

10. The World-Wide Web Virtual Library: Yeast Cell biology, biochemistry and genetics of the yeast species saccharomyces cerevisiae and Schizosaccharomyces pombe, with links to resources and databases. http://genome-www.stanford.edu/Saccharomyces/VL-yeast.html

Yeast ( Budding Fission , and Candida World-Wide Web Virtual Library Biosciences This section of the Virtual Library describes the yeast model organisms: Saccharomyces cerevisiae (budding, bakers', and sometimes brewers'), Schizosaccharomyces pombe (fission), and Candida albicans Contents of this page Yeast information for the non-specialist Saccharomyces cerevisiae information Schizosaccharomyces pombe ... Links to other fungal information Yeast information for the non-specialist Generally speaking: What are yeasts Here are some pictures of yeast Information about yeast and beer brewing Information about yeast and bread baking or to order a free booklet on The Science of Yeast Information about the yeast-based foods Marmite and Vegemite Saccharomyces cerevisiae information Resources for educators General S. cerevisiae information ... Functional genomics resources Resources for educators Genetics Education Network. Tom Manney's (Kansas State University) yeast experiments for undergrads and high school students. A well-done and informative web site for yeast in the classroom. Research Link 2000.

11. Yeast Articles on all aspects of saccharomyces and other yeast genera. http://www.interscience.wiley.com/jpages/0749-503X/

Yeast is a journal published for the international community of yeast researchers. It contains original articles, major and minor reviews and short communications on all aspects of Saccharomyces and other yeast genera. Electronic material associated with the journal can be viewed by clicking on Other Resources. Online ISSN: 1097-0061 Print ISSN: 0749-503X Contact Us

12. GeneQuiz - Analysis Of Saccharomyces Cerevisiae Genome saccharomyces cerevisiae. Compiled at EMBLEBI, Jan 1997. In the ensuing8000 years, saccharomyces cerevisiae played a central role http://www.sander.ebi.ac.uk/genequiz/genomes/sc/

Saccharomyces cerevisiae Compiled at EMBL-EBI, Jan 1997. In the ensuing 8000 years, Saccharomyces cerevisiae played a central role in food production and conservation thanks to its ability to ferment glucose to ethanol and carbon-dioxide. But not only being useful in daily brewers and bakers practice, yeast, as a simple, unicellular eukaryote developed to a unique powerful model system for biological research. Its prominent useful features are the cheap and easy cultivation, short generation times, the detailed genetic and biochemical knowledge accumulated in many years of research and the ease of the application of molecular techniques for its genetic manipulation. Therefore, this fungus provides a highly suitable system to study basic biological processes that are relevant for many other higher eukaryotes including man. More info from NCBI Genome length: 12.06 Mb Reference: Goffeau et al. (1996). Science 274:546, 563-7. A general list of publications can be found here Functional information clock How much is known about the proteins encoded in this genome? Click on the clock to see the tabulated numbers.

13. Jean Beggs Lab Home Page Research focused on premRNA splicing in the yeast saccharomyces cerevisiae, in particular the proteinprotein and protein-RNA interactions within the spliceosome at the University of Edinburgh, UK. http://www.ed.ac.uk/~jeanb/

We are studying pre-mRNA splicing in the yeast Saccharomyces cerevisiae . Pre-mRNA splicing takes place in a very large RNA-protein complex, the spliceosome, within which there are subparticles, the small ribonucleoprotein particles (snRNPs: U1, U2,U4, U5 and U6), each composed of a small nuclear RNA (snRNA) and a set of proteins. During spliceosome assembly and during the course of the splicing reactions many dynamic RNA-RNA interactions occur and are apparently regulated by proteins. Proteins also regulate the specificity, accuracy and efficiency of the splicing process. We are investigating molecular interactions in the spliceosome and identifying novel splicing factors, using both biochemical and genetic approaches, including in vitro splicing assays, UV crosslinking, two-hybrid screens and, more recently, microarray analysis. For more information on pre-mRNA splicing, try The Yeast Nucleus by P. Fantes and J. Beggs, published by Oxford Univerity Press. Recent Publications Projects Studied Choose A Project Lsm Proteins Microarrays This site is a member of the RNA webring Previous 5 Sites Previous Next ... List Sites This page was last updated on 30th October 2002

14. GeneQuiz - Analysis Of Saccharomyces Cerevisiae Genome saccharomyces cerevisiae. Compiled at EMBLEBI, Oct 1997. Functional informationclock. How much is known about the proteins encoded in this genome? http://www.sander.ebi.ac.uk/genequiz/genomes/sc9709/

Saccharomyces cerevisiae Compiled at EMBL-EBI, Oct 1997. Functional information clock How much is known about the proteins encoded in this genome? Click on the clock to see the tabulated numbers. The clock is organized in terms of increasing information content (clockwise, starting from 12 o'clock). Key: - protein sequence has a 3D model built by homology, or a known 3D structure. - protein sequence has functional annotation derived from probable homologues. - protein sequence has functional annotation derived from tentative homologues. homologue - protein sequence has probable homologues of unknown function. - protein sequence has no probable homologues. Note, the term "protein sequence" includes both expressed proteins and those amino acid sequences inferred from predicted open reading frames (ORFs). Select analysis subsets: by protein identifier - specify a particular protein or ORF, e.g., by functional class - specify one of several functional classes, e.g., transport by reliability - specify the reliability of functional assignment, e.g.

15. The South Side (of Lake Union, That Is) Homey Page Study the position effect that occurs near telomeres in the yeast, saccharomyces cerevisiae. Includes a list of protocols, abstracts of papers from our lab, and a collection of links. http://www.fhcrc.org/labs/gottschling/

HOME Science and Research Gottschling Lab Science and Research Gottschling Lab Home Page Yeast Protocols Bacterial Protocols General Protocols Databases ... Contact Us Welcome to the Gottschling Lab Home Page Y ou have found the home page of Dan Gottschling's laboratory at the Fred Hutchinson Cancer Research Center in Seattle, WA. Within our little cubbyhole of cyberspace, we hope you will find useful resources for studying our organism of choice, Saccharomyces cerevisiae . We have included a list of protocols used in our lab, the Gottschling lab roster, abstracts of papers from our lab, and a collection of indispensible (and not so indispensible) links for molecular biology research. We welcome your suggestions, questions, and gripes. Thanks for visiting us. Prepared By: Michael McMurray Last Modified: Oct 11, 2001

16. Yeast Labs Page sequences (2 to 4fold shotgun coverage) of five saccharomyces species (click here for a phlyogenetic tree of these http://genome-www.stanford.edu/Saccharomyces/yeastlabs.html

Quick Search: Site Map Help Full Search Home ... Contact SGD Saccharomyces cerevisiae Laboratories The Yeast Labs Page is a list of laboratories working on yeast around the world. Yeast colleagues are invited to enter their colleague information into SGD using the Colleague Submission/Update Form . The page displays contact information, links to web pages, gene names and keywords as provided by yeast colleagues. A list of hyperlinks to Saccharomyces cerevisiae laboratories was created and maintained by Ramon Tabtiang in the Herskowitz lab until February 1998. SGD has now accepted responsibility of updating this page. We have recently made significant changes to this page and comments are welcomed through yeast-curator@genome.stanford.edu Please use the Colleague Submission/Update Form to update your colleague information in SGD. More links can be found at Regional Yeast Groups and Other Organism Labs Search by topic: Researcher Institution City, State or Country

17. Book On Yeast Error template 'E/sites/cshlpress.com/mcboty_ saccharomyces.html' not found http://www.cshl.org/books/mcboty_saccharomyces.html

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18. Saccharomyces Cerevisiae saccharomyces cerevisiae. The MIPS Comprehensive Yeast Genome Database aims topresent information on the genomic structure of saccharomyces cerevisiae. http://www.mips.biochem.mpg.de/projects/fungi/yeast.html

mips Projects Projects Fungi Plants Structural genomics Annotation Expression analysis ... Search mips Saccharomyces cerevisiae CYGD - The MIPS Comprehensive Yeast Genome Database General Introduction to CYGD One of the milestones of genome research was the determination of the sequence of the whole genome of the well-studied model eukaryote, the budding yeast Saccharomyces cerevisiae . Goal of this project was the sequencing of the entire nuclear genome of the commonly used laboratory strain S288C. The project started in 1989 and finished in spring 1996. More than 100 laboratories from Europe, USA, Canada and Japan took part of the joined effort.

19. Site Name Prominent organisms. FTP site. Other Databases SGD MIPS YPD. saccharomyces cerevisiaecomplete genome. 100, 300, 500, 700, 900, 1100, 1300, 1500, 1700, 1900, I, 230,203. http://www.ncbi.nlm.nih.gov/PMGifs/Genomes/4932.html

NCBI BLAST Nucleotides Proteins ... Help Search by gene name: Genome resources Prominent organisms FTP site Other Databases: SGD MIPS YPD Saccharomyces cerevisiae complete genome I II III IV ... XVI This collection of Saccharomyces cerevisiae complete chromosome sequences and annotations is a part of the NCBI Reference Sequence (RefSeq) project that provides curated sequence data and related information for the community to use as a standard. The nucleotide and protein sequences, and all other annotations, are provided by the Saccharomyces Genome Database (SGD) and will be revised as SGD is updated. Questions or Comments? Write to the NCBI Service Desk Last modified: November 16, 1999

20. Entrez Genome View Related Databases SGD saccharomyces Genome Database MIPS - The Yeast GenomeYeast Proteome Database PomBase. saccharomyces cerevisiae genome view. http://www.ncbi.nlm.nih.gov/mapview/map_search.cgi?chr=scerevisiae.inf

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