UNIT 13.9 Using GFS to Identify Encoding Genomic Loci from Protein Mass Spectral Data
Published Online: 1 MAR 2008
Copyright © 2008 by John Wiley and Sons, Inc.
Lab Protocol Title
Current Protocols in Bioinformatics
How to Cite
Holmes, M. R. and Giddings, M. C. 2008. Using GFS to Identify Encoding Genomic Loci from Protein Mass Spectral Data. Current Protocols in Bioinformatics. 21:13.9:13.9.1–13.9.20.
- Published Online: 1 MAR 2008
- Published Print: MAR 2008
Genome-based peptide fingerprint scanning (GFS) directly maps several types of protein mass spectral (MS) data to the loci in the genome that may have encoded for the protein. This process can be used either for protein identification or for proteogenomic mapping, which is gene-finding and annotation based on proteomic data. Inputs to the program are one or more mass spectrometry files from peptide mass fingerprinting and/or tandem MS (MS/MS) along with one or more sequences to search them against, and the output is the coordinates of any matches found. This unit describes the use of GFS and subsequent results analysis. Curr. Protoc. Bioinform. 21:13.9.1-13.9.20. © 2008 by John Wiley & Sons, Inc.
- mass spectrometry;
- protein identification;