A high performance multiple sequence alignment system for pyrosequencing reads from multiple reference genomes. - Fahad Saeed; Alan Perez-Rathke; Jaroslaw Gwarnicki; Tanya Y. Berger-Wolf; Ashfaq A. Khokhar (J. Parallel Distributed Comput., 2012)

Interpreting Personal Transcriptomes: Personalized Mechanism-Scale Profiling of RNA-seq Data. - Alan Perez-Rathke; Haiquan Li; Yves A. Lussier (Pacific Symposium on Biocomputing, 2013)

A general method for predicting amino acid residues experiencing hydrogen exchange. - Boshen Wang; Alan Perez-Rathke; Renhao Li; Jie Liang 002 (BHI, 2018)

Predicting Oncogenic Missense Mutations. - Xue Lei; Boshen Wang; Alan Perez-Rathke; Wei Tian 003; Chia-Yi Chou; Yan-Yuan Tseng; Jie Liang 002 (BHI, 2019)

Alterations in Chromatin Folding Patterns in Cancer Variant-Enriched Loci. - Alan Perez-Rathke; Samira Mali; Lin Du; Jie Liang 002 (BHI, 2019)

Structure-based Method for Predicting Deleterious Missense SNPs. - Boshen Wang; Wei Tian 003; Xue Lei; Alan Perez-Rathke; Yan Yuan Tseng; Jie Liang 002 (BHI, 2019)

Structure-based pathogenicity relationship identifier for predicting effects of single missense variants and discovery of higher-order cancer susceptibility clusters of mutations. - Boshen Wang; Xue Lei; Wei Tian 003; Alan Perez-Rathke; Yan-Yuan Tseng; Jie Liang 002 (Briefings Bioinform., 2023)