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MassAnalyzer, a program to help find labeled peptides and compare them to their unlabeled counterparts in a SILAC experiment

Narrevik, Tommy
Master thesis
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URI
https://hdl.handle.net/1956/3360
Date
2008-11-27
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  • Department of Informatics [738]
Abstract
Mass spectrometry(MS) have become an increasingly popular analysis method for high throughput experiments on proteins in biology. SILAC(stable isotope labeling by amino acids in cell culture) is a method within MS that uses labels to differentiate between the same protein from two cell cultures(protein pairs) of the same organism. To identify the protein pairs in SILAC MS/MS is used. The current/automatic method for MS/MS uses the most intense peaks from each single MS for the MS/MS analysis. This often result in incomplete pairs, and proteins that have a low abundance gets ignored. We created a program able to identify these pairs, and the researcher can use the data from it as an inclusion list for the MS/MS run. The program should be easy to maintain and use for other MS data analysis.
Publisher
The University of Bergen
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