Mary Shimoyama, Ph.D.

Mary Shimoyama, Ph.D.

Associate Professor and Vice Chair for Clinical and Research Affairs
Medical Informatics, Bioinformatics, Genomics, Genetics
Medical College of Wisconsin (MCW)
(414) 955-7505
Email Dr. Shimoyama
Medical College of Wisconsin
8701 Watertown Plank Road
Milwaukee, WI 53226


Complete CV

Rat Genome Database (RGD)

Somatic Cell Gene Editing Consortium

Research interests

  • Standardization and integration of genomic and phenotype data
  • The development of informatics tools for data mining, analysis and visualization

Professional preparation

  • Ph.D., 2011, Medical Informatics, University of Wisconsin-Milwaukee
  • M.S., 1981, Leisure Studies, Florida State University
  • B.S., 1978, Music Therapy, University of Miami

Selected recent publications

Laulederkind SJF, Hayman GT, Wang SJ, Hoffman MJ, Smith JR, Bolton ER, De Pons J, Tutaj MA, Tutaj M, Thota J, Dwinell MR, Shimoyama M. "Rat Genome Databases, Repositories, and Tools," Methods Mol Biol. 2019;2018:71-96.

Wang LL, Thomas Hayman G, Smith JR, Tutaj M, Shimoyama ME, Gennari JH. "Predicting instances of pathway ontology classes for pathway integration," J Biomed Semantics. 2019 Jun 13;10(1):11. PMCID: PMC6567466.

Zhao Y, Smith JR, Wang SJ, Dwinell MR, Shimoyama M. "Quantitative phenotype analysis to identify, validate and compare rat disease models," Database (Oxford). 2019 01 01;2019. PMCID: PMC6444380.

Wang SJ, Laulederkind SJF, Zhao Y, Hayman GT, Smith JR, Tutaj M, Thota J, Tutaj MA, Hoffman MJ, Bolton ER, De Pons J, Dwinell MR, Shimoyama M. "Integrated curation and data mining for disease and phenotype models at the Rat Genome Database," Database (Oxford). 2019 01 01;2019. PMCID: PMC6369425.

Laulederkind SJF, Hayman GT, Wang SJ, Smith JR, Petri V, Hoffman MJ, De Pons J, Tutaj MA, Ghiasvand O, Tutaj M, Thota J, Dwinell MR, Shimoyama M. "A Primer for theRat Genome Database (RGD)," Methods Mol Biol. 2018;1757:163-209. PMCID: PMC6487669.

Recent Grants

Shimoyama, Mary E. (Multiple PI), Dwinell, Melinda (Multiple PI) “Dissemination and Coordinating Center for the Somatic Cell Gene Editing Consortium." Sponsored by Officer of the Director, NIH (Feb 1 2019-Nov 30 2023)

Shimoyama, Mary E. (Principal), “Rat Genome Database.” Sponsored by the NHLBI at NIH (January 4 2019 – December 31, 2022)

Shimoyama, Mary E. (Co-Investigator), Dwinell, Melinda (Principal), “Hybrid Rat Diversity Program.” Sponsored by the NORIP (August 1, 2018 – April 30, 2022)

Shimoyama, Mary E. (Co-Investigator), “Harmonizing Disease Annotation of Mouse and Rat Models Through the Human Disease Ontology.” Sponsored by the NIH (September 1, 2015 – June 30, 2016)

Shimoyama, Mary E. (Principal), “Rat Genome Database (MOD) Commons Pilot Supplement.” Sponsored by the NIH (September, 2015 – August, 2016)