title: Peptide sequence tag generation for tandem mass spectra containing post-translational modifications.
abstract: Tandem mass spectrometry is a popular tool for the identification of peptide sequences. In this paper, we present a method for a rapid generation of short peptide sequences via tandem mass spectrometry based on a graph search method. The approach takes advantage of several pairs of peaks that have high intensities. We proposed a Pair Peak value Set (PPS) and used the pair peak values of highest intensities as the root of a tree. The other nodes are viewed as the reference nodes to search the most promising path. We aimed to determine the peptide sequences for MS/MS spectra that have low signal-to-noise ratios. Our experiment on 2420 experimental MS/MS spectra with two PTMs shows that our algorithm achieves better accuracy than the PepNovo approach with higher efficiency.
authors.affiliation: Department of Systems and Computer Science, Howard University, Washington, DC 20059, USA. hli@scs.howard.edu
authors.forename: Hui
authors.initials: H
authors.lastname: Li
authors.forename: Chunmei
authors.initials: C
authors.lastname: Liu
mesh_terms: D000465:Algorithms; D000595:Amino Acid Sequence; D006801:Humans; D011499:Protein Processing, Post-Translational; D020539:Sequence Analysis, Protein / Q000379:methods*; D059629:Signal-To-Noise Ratio; D053719:Tandem Mass Spectrometry / Q000379:methods*