Establishment of a web-based system for gene identifier navigation among databases and Microarray platform annotation：DIPLEX (Database Interrogation Platform for Gene Expression)

• Main Authors: YEN-CHEN CHEN, 陳彥臣
• Other Authors: YUAN-CHII GLADYS LEE, HUNG-WEN CHIU
• Format: Others
• Language: zh-TW
• Published: 2005
• Online Access: http://ndltd.ncl.edu.tw/handle/43715086964667220774

碩士 === 臺北醫學大學 === 醫學資訊研究所 === 93 === Microarray and other gene expression technologies often result in hundreds and thousands of gene raw data; thus, correct and comprehensive gene annotations certainly will help the biomedical researchers interpret more complex work beyond gene lists. Since each gene has embedded valuable information among separate databases where the researchers often find difficult to access and not to mention to obtain the data in a convenient way. The big challenge for this project is the process to put together various identifiers from all databases and further to define the corresponding relationship between each identifier in order to produce correct annotations. As a result, we have developed a service tool DIPLEX (Database Interrogation Platform for Gene Expression) that offers the automatic annotation, the basic gene expression levels in normal tissues and carcinomas using public accessible microarray data, and the relevant biochemical pathways, in an aim to help the biomedical experts to make sense of each gene and the relationships among a gene list obtained from their research. The MatchMiner developed by NCI is one of the similar researches, and we use the most update data and different algorithm from MatchMiner, with NCBI Entrez GeneID as the main identifier to set up its relationship with all other databases. Gene identifier submitted by user will first be transferred into Entrez GeneID and all kinds of gene-related information can then be retrieved according to the user’s need simply by clicking the functional keys. Likewise, user can also review the valuable gene expression level data in microarrays and allocate the position of each gene played in the pathways from KEGG and Biocarta. DIPLEX is located at http://bio.tmu.edu.tw/diplex/ .