Toyoda Tetsuro, Mochizuki Yoshiki, Player Keith, Heida Naohiko, Kobayashi Norio, Sakaki Yoshiyuki
Genomic Sciences Center, Yokohama Institute, RIKEN, 1-77-22, Suehiro, Tsurumi, Yokohama, Kanagawa, Japan.
Bioinformatics. 2007 Feb 15;23(4):524-6. doi: 10.1093/bioinformatics/btl523. Epub 2006 Oct 31.
OmicBrowse is a browser to explore multiple datasets coordinated in the multidimensional omic space integrating omics knowledge ranging from genomes to phenomes and connecting evolutional correspondences among multiple species. OmicBrowse integrates multiple data servers into a single omic space through secure peer-to-peer server communications, so that a user can easily obtain an integrated view of distributed data servers, e.g. an integrated view of numerous whole-genome tiling-array data retrieved from a user's in-house private-data server, along with various genomic annotations from public internet servers. OmicBrowse is especially appropriate for positional-cloning purposes. It displays both genetic maps and genomic annotations within wide chromosomal intervals and assists a user to select candidate genes by filtering their annotations or associated documents against user-specified keywords or ontology terms. We also show that an omic-space chart effectively represents schemes for integrating multiple datasets of multiple species.
OmicBrowse is developed by the Genome-Phenome Superbrain Project and is released as free open-source software under the GNU General Public License at http://omicspace.riken.jp.
OmicBrowse是一款浏览器，用于探索在多维组学空间中协调的多个数据集，整合从基因组到表型组的组学知识，并连接多个物种之间的进化对应关系。OmicBrowse通过安全的对等服务器通信将多个数据服务器集成到一个单一的组学空间中，这样用户就可以轻松获得分布式数据服务器的综合视图，例如从用户内部私有数据服务器检索到的大量全基因组平铺阵列数据的综合视图，以及来自公共互联网服务器的各种基因组注释。OmicBrowse特别适用于定位克隆目的。它在宽染色体区间内显示遗传图谱和基因组注释，并通过根据用户指定的关键词或本体术语过滤注释或相关文档来帮助用户选择候选基因。我们还表明，组学空间图有效地表示了整合多个物种的多个数据集的方案。
OmicBrowse由基因组-表型组超级大脑项目开发，并根据GNU通用公共许可证作为免费开源软件在http://omicspace.riken.jp发布。
