Adepts: Advanced peptide de novo Sequencing with a Pair of Tandem Mass Spectra. - Lin He 002; Bin Ma 002 (J. Bioinform. Comput. Biol., 2010)

A combinatorial approach to the peptide feature matching problem for label-free quantification. - Hao Lin; Lin He 002; Bin Ma 002 (Bioinform., 2013)

De novo sequencing with Limited Number of Post-Translational Modifications per peptide. - Lin He 002; Xi Han; Bin Ma 002 (J. Bioinform. Comput. Biol., 2013)

Algorithms for Characterizing Peptides and Glycopeptides with Mass Spectrometry. - Lin He 002 (2013)

Fingerprinting protein structures effectively and efficiently. - Xuefeng Cui; Shuai Cheng Li 001; Lin He 002; Ming Li 001 (Bioinform., 2014)