Heilongjiang Key Laboratory of Anti-fibrosis Biotherapy, Mudanjiang Medical University, Heilongjiang 157011, China.
BMC Genomics. 2010 Jul 13;11:429. doi: 10.1186/1471-2164-11-429.
Currently, a number of yeast genomes with different physiological features have been sequenced and annotated, which provides invaluable information to investigate yeast genetics, evolutionary mechanism, structure and function of gene families.
YeastWeb is a novel database created to provide access to gene families derived from the available yeast genomes by assigning the genes into putative families. It has many useful features that complement existing databases, such as SGD, CYGD and Génolevures: 1) Detailed computational annotation was conducted with each entry with InterProScan, EMBOSS and functional/pathway databases, such as GO, COG and KEGG; 2) A well established user-friendly environment was created to allow users to retrieve the annotated genes and gene families using functional classification browser, keyword search or similarity-based search; 3) Workset offers users many powerful functions to manage the retrieved data efficiently, associate the individual items easily and save the intermediate results conveniently; 4) A series of comparative genomics and molecular evolution analysis tools are neatly implemented to allow users to view multiple sequence alignments and phylogenetic tree of gene families. At present, YeastWeb holds the gene families clustered from various MCL inflation values from a total of 13 available yeast genomes.
Given the great interest in yeast research, YeastWeb has the potential to become a useful resource for the scientific community of yeast biologists and related researchers investigating the evolutionary relationship of yeast gene families. YeastWeb is available at http://centre.bioinformatics.zj.cn/Yeast/.
目前，已经测序和注释了许多具有不同生理特征的酵母基因组，这为研究酵母遗传学、进化机制、基因家族的结构和功能提供了宝贵的信息。
YeastWeb 是一个新的数据库，旨在通过将基因分配到假定的家族中，提供来自现有酵母基因组的基因家族的访问。它具有许多有用的功能，可以补充现有的数据库，如 SGD、CYGD 和 Génolevures：1）使用 InterProScan、EMBOSS 和功能/途径数据库（如 GO、COG 和 KEGG）对每个条目进行详细的计算注释；2）创建了一个成熟易用的环境，允许用户使用功能分类浏览器、关键字搜索或基于相似性的搜索检索注释基因和基因家族；3）Workset 为用户提供了许多强大的功能，以有效地管理检索到的数据，轻松关联各个项目，并方便地保存中间结果；4）整齐地实现了一系列比较基因组学和分子进化分析工具，允许用户查看基因家族的多序列比对和系统发育树。目前，YeastWeb 拥有从总共 13 个可用酵母基因组聚类的各种 MCL 膨胀值的基因家族。
鉴于人们对酵母研究的浓厚兴趣，YeastWeb 有可能成为酵母生物学家和相关研究人员研究酵母基因家族进化关系的有用资源。YeastWeb 可在 http://centre.bioinformatics.zj.cn/Yeast/ 上获得。
