Ophthalmology And Visual Sciences

Thomas L. Casavant, BS, MS, PhD


Professor and Director of the UI Center for Bioinformatics and Computational Biology and the ECE Parallel Processing Laboratory
Roy J. Carver, Jr. Chair in Bioinformatics and Computational Biology
Professor of Electrical & Computer Engineering
Professor of Ophthalmology and Visual Sciences, Biomedical Engineering

Contact Information

Office: 314 CC
Iowa City, IA 52242
Phone: 319-335-5953

Email: tom-casavant@uiowa.edu
Web: More About Dr. Casavant - Related Websites and Resources


BS, Computer Science, University of Iowa
MS, Electrical and Computer Engineering, University of Iowa
PhD, Electrical and Computer Engineering, University of Iowa

Education/Training Program Affiliations

Interdisciplinary Graduate Program in Genetics
Interdisciplinary Graduate Program in Informatics
Interdisciplinary Graduate Program in Neuroscience
Interdisciplinary Graduate Program in Translational Biomedicine

Research Summary

My research interests span the areas of computational aspects of genomics, molecular biology, and human genetics, as well as high performance computing systems, software and networks. For the first 15 years of my research career, I have been engaged in research and development efforts in high performance computing systems [1] and software [2]. Since 1994, I have become increasingly involved in applying computational and networking techniques to problems of genomics and human genetics. These collaborative efforts with several other members of the Genetics Ph.D. Program faculty at Iowa (E. Stone, V. Sheffield, M.B. Soares, and V. Vieland) have included identification of genome loci linked to rare and common diseases such as macular degeneration, autism [3], and hypertension and obesity. GenoMap [4], a web-based system to gather and analyse pedigree, genotype, and phenotype data, was developed at Iowa to assist clinicians, molecular biologists, and geneticists in cooperating to gather and analyze data sets to help identify disease-causing gene candidates. Large-scale cDNA sequencing and mapping projects [5] have (as of April 2000) contributed over 50, 000 novel ESTs (Expressed Sequence Tags) to the public databases in Rat, Mouse, Human and other species (http://genome.uiowa.edu). These efforts are being expanded to now include the large scale identification and sequencing of the Mammalian Gene Collection of all full-length human mRNAs.

Selected Publications

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Ephraim S, Anand N, DeLuca A, Taylor K, Kolbe D, Simpson A, Azaiez H, Sloan C, Shearer A, Hallier A, Casavant T, Scheetz T, Smith R, Braun T.  Cordova: Web-based management of genetic variation data.  Bioinformatics.  2014. 30(23):3438-9.

Shearer A, Eppsteiner R, Booth K, Ephraim S, Gurrola, 2nd J, Simpson A, Black-Ziegelbein E, Joshi S, Ravi H, Giuffre A, Happe S, Hildebrand M, Azaiez H, Bayazit Y, Erdal M, Lopez-Escamez J, Gazquez I, Tamayo M, Gelvez N, Leal G, Jalas C, Ekstein J, Yang T, Usami S, Kahrizi K, Bazazzadegan N, Najmabadi H, Scheetz T, Braun T, Casavant T, LeProust E, Smith R.  Utilizing ethnic-specific differences in minor allele frequency to recategorize reported pathogenic deafness variants.  Am J Hum Genet.  2014. 95(4):445-53.

Scheetz T, Fingert J, Wang K, Kuehn M, Knudtson K, Alward W, Boldt H, Russell S, Folk J, Casavant T, Braun T, Clark A, Stone E, Sheffield V.  A genome-wide association study for primary open angle glaucoma and macular degeneration reveals novel Loci.  PLoS One.  2013. 8(3):e58657.

Shearer A, Black-Ziegelbein E, Hildebrand M, Eppsteiner R, Ravi H, Joshi S, Guiffre A, Sloan C, Happe S, Howard S, Novak B, Deluca A, Taylor K, Scheetz T, Braun T, Casavant T, Kimberling W, Leproust E, Smith R.  Advancing genetic testing for deafness with genomic technology.  J Med Genet.  2013. 50(9):627-634.

Taylor K, Deluca A, Shearer A, Hildebrand M, Black-Ziegelbein E, Anand V, Sloan C, Eppsteiner R, Scheetz T, Huygen P, Smith R, Braun T, Casavant T.  AudioGene: predicting hearing loss genotypes from phenotypes to guide genetic screening.  Hum Mutat.  2013. 34(4):539-545.

Nannapaneni K, Ben-Shahar Y, Keen H, Welsh M, Casavant T, Scheetz T.  Computational identification of operon-like transcriptional loci in eukaryotes.  Comput Biol Med.  2013. 43(6):738-743.

Wagner A, Anand V, Wang W, Chatterton J, Sun D, Shepard A, Jacobson N, Pang I, Deluca A, Casavant T, Scheetz T, Mullins R, Braun T, Clark A.  Exon-level expression profiling of ocular tissues.  Exp Eye Res.  2013. 111:105-111.

Wagner A, Taylor K, Deluca A, Casavant T, Mullins R, Stone E, Scheetz T, Braun T.  Prioritization of retinal disease genes: an integrative approach.  Hum Mutat.  2013. 34(6):853-859.

Malchenko S, Seftor E, Nikolsky Y, Hasegawa S, Kuo S, Stevens J, Poyarkov S, Nikolskaya T, Kucaba T, Wang M, Abdulkawy H, Casavant T, Morcuende J, Buckwalter J, Hohl R, Deyoung B, Kernstine K, Bonaldo Mde F, Hendrix M, Soares M, Soares V.  Putative multifunctional signature of lung metastases in dedifferentiated chondrosarcoma.  Sarcoma.  2012. 2012:820254.

Morcuende J, Stevens J, Scheetz T, de Fatima Bonaldoc M, Casavant T, Otero J, Soares M.  Swarm rat chondrosarcoma cells as an in vivo model: lung colonization and effects of tissue environment on tumor growth.  Iowa Orthop J.  2012. 32:46-53.

Date Last Modified: 06/06/2016 - 13:17:48