Searching for three-dimensional secondary structural patterns in proteins with ProSMoS. - Shuoyong Shi; Yi Zhong; Indraneel Majumdar; S. Sri Krishna; Nick V. Grishin (Bioinform., 2007)

Analysis of CASP8 targets, predictions and assessment methods. - Shuoyong Shi; Jimin Pei; Ruslan Sadreyev; Lisa N. Kinch; Indraneel Majumdar; Jing Tong; Hua Cheng; Bong-Hyun Kim; Nick V. Grishin (Database J. Biol. Databases Curation, 2009)

Structure similarity measure with penalty for close non-equivalent residues. - Ruslan Sadreyev; Shuoyong Shi; David Baker 001; Nick V. Grishin (Bioinform., 2009)

ProSMoS server: a pattern-based search using interaction matrix representation of protein structures. - Shuoyong Shi; Bhadrachalam Chitturi; Nick V. Grishin (Nucleic Acids Res., 2009)

An automatic method for CASP9 free modeling structure prediction assessment. - Qian Cong; Lisa N. Kinch; Jimin Pei; Shuoyong Shi; Vyacheslav N. Grishin; Wenlin Li; Nick V. Grishin (Bioinform., 2011)

ECOD: An Evolutionary Classification of Protein Domains. - Hua Cheng; R. Dustin Schaeffer; Yuxing Liao; Lisa N. Kinch; Jimin Pei; Shuoyong Shi; Bong-Hyun Kim; Nick V. Grishin (PLoS Comput. Biol., 2014)