Profiles people listing in a scrolling container.
  1. Home
  2. People

Thomas Casavant, BS, MS, PhD

Professor of Electrical and Computer Engineering
Photo of Thomas Casavant, BS, MS, PhD
Thomas Casavant, BS, MS, PhD - University of Iowa

Introduction

My research interests span the areas of computational aspects of genomics, molecular biology, and human genetics, as well as high performance computing systems, software, networks, Machine Learning; Cancer Genomics; Personalized Genomic Medicine . For the first 15 years of my research career, I have been engaged in research and development efforts in high performance computing systems and software. 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, and hypertension and obesity. GenoMap, 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 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. For the past 15 years since the completion of the sequencing of the Human Genome, my collaborative efforts have been driven by disease gene understanding and applications of machine learning to personalized genomic medicine.

Current Positions

  • Professor of Electrical and Computer Engineering (ECE)
  • Professor of Ophthalmology and Visual Sciences
  • Professor of Biomedical Engineering (BME)
  • 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

Education

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

Graduate Program Affiliations

Selected Publications

  • Tollefson, M. R., Litman, J., Qi, G., Marini, R. J., O\textquoterightConnell, Claire E, Wipfler, M. J., Bernabe, H. V., Tollefson, W. T., Casavant, T. L., Braun, T. A., Smith, R. J. & Schnieders, M. J. (2019). Structural Insights into Hearing Loss Genetics from Polarizable Protein Repacking. bioRxiv. DOI: 10.1101/556258.
  • Taylor, K. R., Booth, K. T., Azaiez, H., Sloan, C. M., Kolbe, D. L., Glanz, E. N., Shearer, A. E., DeLuca, A. P., Anand, V. N., Hildebrand, M. S., Simpson, A. C., Eppsteiner, R. W., Scheetz, T. E., Braun, T. A., Huygen, P. L., Smith, R. J. & Casavant, T. L. (2016). Audioprofile Surfaces: The 21st Century Audiogram. Annals of otology, rhinology, and laryngology 125 (5) 361-368. PMID: 26530094. DOI: 10.1177/0003489415614863.
  • Goodman, C. W., Major, H. J., Walls, W. D., Sheffield, V. C., Casavant, T. L. & Darbro, B. W. (2015). CNV-ROC: A cost effective, computer-aided analytical performance evaluator of chromosomal microarrays. Journal of biomedical informatics 54 106-113. PMID: 25595567. DOI: 10.1016/j.jbi.2015.01.001.
  • Shearer, A. E., Black-Ziegelbein, E. A., Hildebrand, M. S., Eppsteiner, R. W., Ravi, H., Joshi, S., Guiffre, A. C., Sloan, C. M., Happe, S., Howard, S. D., Novak, B., Deluca, A. P., Taylor, K. R., Scheetz, T. E., Braun, T. A., Casavant, T. L., Kimberling, W. J., Leproust, E. M. & Smith, R. J. (2013). Advancing genetic testing for deafness with genomic technology. J Med Genet 50 (9) 627-634. PMID: 23804846.00. DOI: 10.1136/jmedgenet-2013-101749.
  • Scheetz, T. E., Fingert, J. H., Wang, K., Kuehn, M. H., Knudtson, K. L., Alward, W. L., Boldt, H. C., Russell, S. R., Folk, J. C., Casavant, T. L., Braun, T. A., Clark, A. F., Stone, E. M. & Sheffield, V. C. (2013). A genome-wide association study for primary open angle glaucoma and macular degeneration reveals novel Loci. PLoS One 8 (3) e58657. PMID: 23536807.00. DOI: 10.1371/journal.pone.0058657.
  • Ben-Shahar, Y., Keen, H. L., Welsh, M. J., Casavant, T. L., Scheetz, T. E. & Nannapaneni, K. (2013). Computational identification of operon-like transcriptional loci in eukaryotes. Comput Biol Med 43 (6) 738-743. PMID: 23668349.00. DOI: 10.1016/j.compbiomed.2013.03.004.
  • Wagner, A. H., Anand, V. N., Wang, W. H., Chatterton, J. E., Sun, D., Shepard, A. R., Jacobson, N., Pang, I., Deluca, A. P., Casavant, T. L., Scheetz, T. E., Mullins, R. F., Braun, T. A. & Clark, A. F. (2013). Exon-level expression profiling of ocular tissues. Exp Eye Res 111 105-111. PMID: 23500522.00. DOI: 10.1016/j.exer.2013.03.004.
  • Wagner, A. H., Taylor, K. R., Deluca, A. P., Casavant, T. L., Mullins, R. F., Stone, E. M., Scheetz, T. E. & Braun, T. A. (2013). Prioritization of retinal disease genes: an integrative approach. Hum Mutat 34 (6) 853-859. PMID: 23508994.00. DOI: 10.1002/humu.22317.
  • Taylor, K. R., Deluca, A. P., Shearer, A. E., Hildebrand, M. S., Black-Ziegelbein, E. A., Anand, V. N., Sloan, C., Eppsteiner, R. W., Scheetz, T. E., Huygen, P. L., Smith, R. J., Braun, T. A. & Casavant, T. L. (2013). AudioGene: predicting hearing loss genotypes from phenotypes to guide genetic screening. Human Mutation 34 (4) 539-545.
  • Cai, J., Keen, H. L., Sigmund, C. D. & Casavant, T. L. (2012). Coex-Rank: An approach incorporating co-expression information for combined analysis of microarray data. J Integr Bioinform 9 (1) 208.