DNA reference alignment benchmarks based on tertiary structure of encoded proteins. - Hyrum Carroll; Wesley A. Beckstead; Timothy O'Connor; Mark T. W. Ebbert; Mark J. Clement; Quinn Snell; David A. McClellan (Bioinform., 2007)

Pharmacogenomics: analysing SNPs in the CYP2D6 gene using amino acid properties. - Mark T. W. Ebbert; Wesley A. Beckstead; Timothy O'Connor; Mark J. Clement; David A. McClellan (Int. J. Bioinform. Res. Appl., 2007)

Characterization of uncertainty in the classification of multivariate assays: application to PAM50 centroid-based genomic predictors for breast cancer treatment plans. - Mark T. W. Ebbert; Roy R. L. Bastien; Kenneth M. Boucher; Miguel Martín; Eva Carrasco; Rosalía Caballero; Inge J. Stijleman; Philip S. Bernard; Julio C. Facelli (J. Clin. Bioinform., 2011)

Variant Tool Chest: an improved tool to analyze and manipulate variant call format (VCF) files. - Mark T. W. Ebbert; Mark E. Wadsworth; Kevin L. Boehme; Kaitlyn L. Hoyt; Aaron R. Sharp; Brendan D. O'Fallon; John S. K. Kauwe; Perry G. Ridge (BMC Bioinform., 2014)

SA-SSR: a suffix array-based algorithm for exhaustive and efficient SSR discovery in large genetic sequences. - Brandon D. Pickett; S. M. Karlinsey; C. E. Penrod; Michael J. Cormier; Mark T. W. Ebbert; Dennis K. Shiozawa; C. J. Whipple; Perry G. Ridge (Bioinform., 2016)

A novel approach for multi-SNP GWAS and its application in Alzheimer's disease. - Paul M. Bodily; M. Stanley Fujimoto; Justin T. Page; Mark J. Clement; Mark T. W. Ebbert; Perry G. Ridge (BMC Bioinform., 2016)

Evaluating the necessity of PCR duplicate removal from next-generation sequencing data and a comparison of approaches. - Mark T. W. Ebbert; Mark E. Wadsworth; Lyndsay A. Staley; Kaitlyn L. Hoyt; Brandon D. Pickett; Justin Miller; John Duce; John S. K. Kauwe; Perry G. Ridge (BMC Bioinform., 2016)