"Probing the Structure of Protein Complexes Using Covalent Derivatization and Two-Dimensional Protein Chromatography/Mass Spectrometry", Richard L. Beardsley, Xiaohui Liu, William E. Running, and James P. Reilly

"Determination of Structures of y- and b- type Ions by 157 nm Photodissociation", Liangyi Zhang and James P. Reilly

 "Automated De Novo Sequencing of Dual Labeled Peptides", Laura A. Sharon and James P. Reilly

 "Posttranslational Modifications of Caulobacter crescentus Ribosomal Proteins", W.E. Running and J.P. Reilly