'Inductive' Charges on Atoms in Proteins: Comparative Docking with the Extended Steroid Benchmark Set and Discovery of a Novel SHBG Ligand. - Artem Cherkasov; Zheng Shi; Yvonne Y. Li; Steven J. M. Jones; Magid Fallahi; Geoffrey L. Hammond (J. Chem. Inf. Model., 2005)

Improving the specificity of high-throughput ortholog prediction. - Debra L. Fulton; Yvonne Y. Li; Matthew R. Laird; Benjamin G. S. Horsman; Fiona M. Roche; Fiona S. L. Brinkman (BMC Bioinform., 2006)

Selective Targeting of Indel-inferred Differences in Spatial Structures of Homologous Proteins. - Yvonne Y. Li; Steven J. M. Jones; Artem Cherkasov (J. Bioinform. Comput. Biol., 2006)

cisRED: a database system for genome-scale computational discovery of regulatory elements. - Gordon Robertson; Misha Bilenky; Keven Lin; An He; W. Yuen; M. Dagpinar; Richard Varhol; Kevin Teague; Obi L. Griffith; X. Zhang; Y. Pan; Maik Hassel; et al. (Nucleic Acids Res., 2006)

Genomic analysis of a rare human tumor. - Steven J. M. Jones; Janessa Laskin; Yvonne Y. Li; Obi L. Griffith; Jianghong An; Mikhail Bilenky; Yaron S. N. Butterfield; Timothee Cezard; Eric Chuah; Richard Corbett; Anthony P. Fejes; Malachi Griffith; et al. (BMC Bioinform., 2010)

A Computational Approach to Finding Novel Targets for Existing Drugs. - Yvonne Y. Li; Jianghong An; Steven J. M. Jones (PLoS Comput. Biol., 2011)

Quantification of aneuploidy in targeted sequencing data using ASCETS. - Liam F. Spurr; Mehdi Touat; Alison M. Taylor; Adrian M. Dubuc; Juliann Shih; David M. Meredith; William V. Pisano; Matthew Meyerson; Keith L. Ligon; Andrew D. Cherniack; Yvonne Y. Li; Rameen Beroukhim (Bioinform., 2021)