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Appendix

PeakLink: A new peptide peak linking method in LC-MS/MS using wavelet and SVM

Mehrab Ghanat Bari, Xuepo Ma and Jianqiu Zhang

Department of Electrical and Computer Engineering

The University of Texas at san Antonio

One UTSA Circle

San Antonio, TX 78246, USA

1 Datasets

To developing PeakLink (PL) and to test it, we used some freely available datasets, which can be

downloaded from [1, 2, 3]. As mentioned in the paper, case 1 to case 7 contain Super-SILAC and case

8 contains label-free datasets.

Table 1 shows the datasets in each case, which aligned with each other. For example, in case 1,

Andromeda search engine ideti ed 2978 and 2058 peptides for ductal and normal sample respectively,

which 1084 peptides are common between two sample. Out of 1084 peptides, we select 468 as training

and the rest for testing (616 peptides).

 

Suplementarysupplementary.pdf (86 Kb)