Automated Tracking of Experimental Array Data for " Inflammation and the Host Response to Injury"

We have developed a web-based system for tracking the progress of a clinical sample through a gene expression experiment at the SGTC. It utilizes an application interface to insert, update and view sample tracking data, such as project name, GLUE id, Affymetrix GeneChip, DNa and RNA concentrationns obtained in preps and sample processing status in a central database. A menu and radio-button driven interface enforces a standard vocabulary and reduces human error in the laboratory.

Sample tracking uses identifiers provided by the GLUE grant’s central database, but augments these with local information. This ensures compatibility with the core data repository and provides a natural resources for error-checking. 

Experimental results are stored using the SGTC’s automated workflow modules and are associated with the clinical samples through this database. Connections to statistical analysis software enable rapid on-site processing for data dissemination.

			Personnel Jochen Kumm Julie Wilhelmy Michael Mindrinos Ron Davis Related Info Inflammation and the host response to injury project

Impact/Significance

• The database will provide a local efficient method for organizing the mass amounts of data associated with the Inflammation and the Host Response to Injury project
• It will also serve as a means for automatically performing introductory analyses on chip files
• It is a structured tool relating genome center data to the central Glue Grant database

Accomplishments

• Developed interface for data entry
• Set parameters for a wide variety of search options
• Prototyped interface with data from Glue Grant endotoxin studies
• Implemented automated connection to statistical package, R, for analysis

last updated 12/16/2004