SCOPmap: Automated assignment of protein structures to evolutionary superfamilies. - Sara Cheek; Yuan Qi; S. Sri Krishna; Lisa N. Kinch; Nick V. Grishin (BMC Bioinform., 2004)

Prediction of functional specificity determinants from protein sequences using log-likelihood ratios. - Jimin Pei; Wei Cai; Lisa N. Kinch; Nick V. Grishin (Bioinform., 2006)

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)

Structural Differences between Proteins with Similar Sequences. - Qian Cong; Bong-Hyun Kim; Lisa N. Kinch; Nick V. Grishin (BIBE, 2010)

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)

Pclust: protein network visualization highlighting experimental data. - Wenlin Li; Lisa N. Kinch; Nick V. Grishin (Bioinform., 2013)

Seq2Ref: a web server to facilitate functional interpretation. - Wenlin Li; Qian Cong; Lisa N. Kinch; Nick V. Grishin (BMC Bioinform., 2013)

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)

Functional analysis of Rossmann-like domains reveals convergent evolution of topology and reaction pathways. - Kirill E. Medvedev; Lisa N. Kinch; R. Dustin Schaeffer; Nick V. Grishin (PLoS Comput. Biol., 2019)

Mutation severity spectrum of rare alleles in the human genome is predictive of disease type. - Jimin Pei; Lisa N. Kinch; Zbyszek Otwinowski; Nick V. Grishin (PLoS Comput. Biol., 2020)

ECOD domain classification of 48 whole proteomes from AlphaFold Structure Database using DPAM2. - R. Dustin Schaeffer; Jing Zhang; Kirill E. Medvedev; Lisa N. Kinch; Qian Cong; Nick V. Grishin (PLoS Comput. Biol., 2024)