Review of SGD

Title: Saccharomyces Genome Database (SGD)

URL: http://www.yeastgenome.org/

Date Reviewed: May 24, 2004

Description:

SGD is an organized collection of genetic and molecular biological information for S.cerevisiae (budding yeast). Its contents include:

˙        Sequences of genes and proteins

˙        Descriptions and classifications of genes/proteins

˙        Links to literature

˙        Links to functional genomics datasets

˙        Tools for analysis and comparison of sequences

The locus page for each gene contains the essential information, including:

˙         gene name, synonyms, and systematic name

˙         Gene Ontology (GO) annotations

˙         descriptions of the gene and gene product

˙         phenotype of mutations in the gene

˙         chromosomal coordinates and genetic mapping information

˙         interactive graphical chromosome map

˙         a curated collection of literature

˙         tools for retrieval and analysis of the gene and protein sequences

˙         a protein information page displaying the basic physical properties of the protein

˙         tools for retrieval of chromosomal and genetic maps in the region of the locus

˙         tools for comparison of the protein sequence to proteins of other budding yeast species, C. elegans, and mammals (see below)

˙         links to three SGD global search tools

Strengths:

This database is very comprehensive. It has integrated genetic information as well as links leading you to other useful databases. To search a gene, you only need know the name (even less than that), and you can get a productive feedback, including sequence, locus, function, struction, reference, interacting proteins and so on. The databases for interacting proteins may help to save labor to do fishing experiments.

Gene Ontology (GO) annotation uses the same jargon for function, process and component of genes. So genes can be group by their annotations.

Weaknesses:

Do not have a listing for mutant alleles.

Comprehensiveness:

Excellent.

Timeliness:

SGD seems to be updated every month and the previous one is on May 12.

Ease of Use:

Good, but I donít know how to use functional analysis tools.

Responsiveness:

The website is fast. I havenít met any webpage failure.

Similar or Related Sites:

Flybase

Mouse Genome Informatics (MGI)

These three databases share the same Gene Ontology (GO) annotation.

Overall Evaluation: 1 to 5 stars

5