Fei Zhangjun, Joung Je-Gun, Tang Xuemei, Zheng Yi, Huang Mingyun, Lee Je Min, McQuinn Ryan, Tieman Denise M, Alba Rob, Klee Harry J, Giovannoni James J
Boyce Thompson Institute for Plant Research, Cornell University, USDA Robert W Holley Center for Agriculture and Health, Ithaca, NY 14853, USA.
Nucleic Acids Res. 2011 Jan;39(Database issue):D1156-63. doi: 10.1093/nar/gkq991. Epub 2010 Oct 21.
Tomato Functional Genomics Database (TFGD) provides a comprehensive resource to store, query, mine, analyze, visualize and integrate large-scale tomato functional genomics data sets. The database is functionally expanded from the previously described Tomato Expression Database by including metabolite profiles as well as large-scale tomato small RNA (sRNA) data sets. Computational pipelines have been developed to process microarray, metabolite and sRNA data sets archived in the database, respectively, and TFGD provides downloads of all the analyzed results. TFGD is also designed to enable users to easily retrieve biologically important information through a set of efficient query interfaces and analysis tools, including improved array probe annotations as well as tools to identify co-expressed genes, significantly affected biological processes and biochemical pathways from gene expression data sets and miRNA targets, and to integrate transcript and metabolite profiles, and sRNA and mRNA sequences. The suite of tools and interfaces in TFGD allow intelligent data mining of recently released and continually expanding large-scale tomato functional genomics data sets. TFGD is available at http://ted.bti.cornell.edu.
番茄功能基因组数据库（TFGD）提供了一个全面的资源库，用于存储、查询、挖掘、分析、可视化和整合大规模番茄功能基因组数据集。该数据库在功能上是对之前描述的番茄表达数据库的扩展，纳入了代谢物谱以及大规模番茄小RNA（sRNA）数据集。已开发出计算流程分别处理存档于该数据库中的微阵列、代谢物和sRNA数据集，并且TFGD提供所有分析结果的下载。TFGD还旨在通过一组高效的查询界面和分析工具，让用户能够轻松检索生物学上重要的信息，包括改进的阵列探针注释以及用于从基因表达数据集和miRNA靶标中识别共表达基因、受显著影响的生物学过程和生化途径，以及整合转录本和代谢物谱、sRNA和mRNA序列的工具。TFGD中的这套工具和界面允许对最近发布且不断扩充的大规模番茄功能基因组数据集进行智能数据挖掘。可通过http://ted.bti.cornell.edu访问TFGD。
