An overview of the human genome database platform-Sybase
Technical Report
·
OSTI ID:6570197
The Human Genome Project is a joint effort between the DOE and the NIH. The initial DOE effort at LLNL focused on forming a large-scale map of chromosome 19 by finding a set of some 2,500 cosmid clones that overlap and span all [approximately]60 million nucleotides of the chromosome. Unfortunately, the process of making cosmid clones loses all information about their ordering. To regain this ordering information we fingerprinting each cosmid clone in a laser gel electrophoresis system and compare the fingerprints against all others looking for overlap. LLNL has chosen chromosome 19 because it is one of the smaller chromosomes and because it contains genes of interest that LLNL researchers have studied in great detail during recent years. Approximately one year ago the DOE labs working on the Human Genome Project selected Sybase as their relational database management system. Since that time we have installed the Sybase Server on one SUN-4 and the Sybase front-end tools on several of our other SUN computers. Additionally, nearly all existing data that was stored in ASCII files has been transferred into Sybase. This project which has been a collaborative effort between Biomed and ADD has resulted in a database that ensures the genome data is accurately stored, effectively managed, and conveniently accessible to the biologists in the project. In order to service the varying and rapidly changing needs of genome project we have brought up several different databases providing capabilities for storing the genome experiment and lab notebook data, testing subsets of our data to develop new features, and a working place for biologists to examine their data and implement their own data tables. Sybase triggers and rules were extensively used to maintain the refential integrity of the data by checking the consistency of logically related data in different tables.
- Research Organization:
- Lawrence Livermore National Lab., CA (United States)
- Sponsoring Organization:
- DOE; USDOE, Washington, DC (United States)
- DOE Contract Number:
- W-7405-ENG-48
- OSTI ID:
- 6570197
- Report Number(s):
- UCRL-ID-108558; ON: DE93013306
- Country of Publication:
- United States
- Language:
- English
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