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Faculty Research

Peer-Reviewed Manuscripts


Yongsheng Bai, Jeff Kinne, Lizhong Ding, Ethan Rath, Aaron Cox, Siva Naidu and Youping Deng. Identification of genome-wide non-canonical spliced regions and analysis of biological functions for spliced sequences using Read-Split-Fly. Accepted to appear in BMC Bioinformatics

“Ethical Frameworks in Public Administration.” Chapter in Global Encyclopedia of Public Administration and Public Policy. (Forthcoming in 2016).

Char, D. S., G Lázaro-Muñoz, A. Barnes, D. Magnus, M. J. Deem, & J. D. Lantos (forthcoming). "Genomic Contraindications for Heart Transplantation." Pediatrics.

Dai, H., M. J. Deem, & J. Hao (forthcoming). "Geographic Variations in Electronic Cigarette Advertisements on Twitter in the United States." International Journal of Public Health.


Megan, Tucker. (2017). "The current state of genetic counseling and newborn screening: an interview with Megan Tucker"

Myers, Nathan. (2017). “Building Community Preparedness Under Fiscal Constraints: A Conversation with Program Staff for Project Public Health Ready.” PA Times Online.

Deem, M. J. (2017). "Vulnerability in Genetic Counseling and the Ground of Nondirectiveness." In C. Straehle (ed.), Vulnerability, Autonomy, and Applied Ethics, pp. 138-156. Routledge.


Deem, M. J. (2016). "Dehorning the Darwinian Dilemma for Normative Realism." Biology and Philosophy. 31(5): 727-746.

Deem, M. J. & G. Ramsey (2016). "Guilt by Association?" Philosophical Psychology. 29(4): 570-585.

Deem, M. J. (2016). "Microbes and Medical Decisions." American Journal of Bioethics. 16(2):55-56.

Deem, M. J. (2016). "An Accessibility Constraint on Parental Refusal of Critical Newborn Screening." American Journal of Bioethics. 16(1): 24-26.

Deem, M. J. (2016). "Whole-Genome Sequencing and Disability in the NICU: Exploring Practical and Ethical Challenges." Pediatrics. 137(s1): S47-S55.

Myers, Nathan. 2016. “Rebuilding Trust between Congress and Executive Branch: A Matter of Public Health Emergency Preparedness. PA Times Online.

Myers, Nathan. 2016. “The Role of Local-State Integration in Public Health on Health Security.” PA Times Online.

Myers, Nathan. 2016. “Planning and Preparing for Vulnerable Populations.” PA Times Online.

Myers, Nathan. 2016. “Putting the Right Partners in the Right Places for Public Health Preparedness.” PA Times Online.

Myers, Nathan. 2016. “Community Engagement and Public Health Preparedness: Santa Rosa County.” PA Times Online.

Myers, Nathan. 2016. Is Public Health Ready? Incentivizing Planning and Preparedness for Emerging Threats. PA Times Online.

Yongsheng Bai, Lizhong Ding, Steve Baker, Jenny M Bai, Ethan Rath, Feng Jiang, Jianghong Wu, Hui Jiang, Gary Stuart. Dissecting the biological relationship between TCGA miRNA and mRNA sequencing data using MMiRNA-Viewer. BMC bioinformatics. Publication date 2016/10/6. [article]

Genetic Counselor Workforce Issues: A survey of genetic counselors licensed in the state of Indiana, Stephanie Cohen, Megan E Tucker, Paula Delk. Journal of Genetic Counseling. In print [article]

A second family with CATSHL syndrome: Confirmatory report of another unique FGFR3 syndrome. Luis F Escobar, M Tucker, Micheal Barmshad. American Journal of Medical Genetics, May 2016

Ji, X., Wang, J., Liu, B., Zheng, Z., Fu, S., Tarkekgn, GM., Bai, X., Bai, Y.*, Li, H.*, and Zhang, W.* Comparative transcriptome analysis reveals ubiquitin-mediated proteolysis pathway is prominent for primary and secondary hair follicle of Cashmere goat. Accepted by PLoS ONE. (2016).

Ahmad, S. M., Bhattacharyya, P., Jeffries, N., Gisselbrecht, S. S. and Michelson, A. M. Two Forkhead transcription factors regulate cardiac progenitor specification by controlling the expression of receptors of the fibroblast growth factor and Wnt signaling pathways. Development 143, 306-317. (2016).

Bai, Y., Kinne, J., Donham, B., Jiang, F., Ding, L., Hassler, J., Kaufman, R.J. Read-Split-Run: An improved bioinformatics pipeline for identification of genome-wide non-canonical spliced regions using RNA-Seq data. BMC Genomics. (2016).

Bai, X., Zheng, Z., Liu, B., Ji, X., Bai, Y., Zhang, W. Whole blood transcriptional profiling comparison between mild yield of Chinese Holstein cows using RNA-Seq data. BMC Genomics. (2016).

Steding, C. E. Creating chemotherapeutic-resistant breast cancer cell lines: advances and future perspectives. Future oncology 12, 1517-1527, doi:10.2217/fon-2016-0059 (2016).

Tuttle, E.M., Bergland, A.O., Korody, M.L., Brewer, M.S., Newhouse, D.J., Minx, P., Stager, M., Betuel, A., Cheviron, Z.A., Warren, W.C., Gonser, R.A., & Balakrishnan, C.N.Divergence and Functional Degradation of a Sex Chromosome-like Supergene. Current biology : CB 26, 344-350, doi:10.1016/j.cub.2015.11.069 (2016).

Escobar, L.F., Tucker, M., & Barmshad, M. A second family with CATSHL syndrome: Confirmatory report of another unique FGFR3 syndrome. American Journal of Medical Genetics. (2016).

Grunst M.L., Rotenberry J.T., & Grunst A.S. Elevating perceived predation risk modifies the relationship between parental effort and song complexity in the song sparrow Melospiza melodia. J. Avian Biol. 47: 57-68. (doi: 10.1111/jav.00758) (2016).


Michael Keane, Jeremy Semeiks, Andrew E Webb, Yang I Li, Víctor Quesada, Thomas Craig, Lone Bruhn Madsen, Sipko van Dam, David Brawand, Patrícia I Marques, Pawel Michalak, Lin Kang, Jong Bhak, Hyung-Soon Yim, Nick V Grishin, Nynne Hjort Nielsen, Mads Peter Heide-Jørgensen, Elias M Oziolor, Cole W Matson, George M Church, Gary W Stuart, John C Patton, J Craig George, Robert Suydam, Knud Larsen, Carlos López-Otín, Mary J O’Connell, John W Bickham, Bo Thomsen, João Pedro de Magalhães. Insights into the evolution of longevity from the bowhead whale genome. Cell reports. Publication date 2015/1/6. [article]

Hui Yang, Ganka Douglas, Kristin G. Monaghan, Kyle Retterer, Megan T Cho, Luis F. Escobar, Megan E Tucker, Joan Stoler, Lance H Rodan, Diane Stein, Gregory M. Enns, Julia Platt, Rachel Cox, Patricia G. Wheeler, Carrie Crain, Amy Calhoun, Rebecca Tryon, Gabriele Richard, Patrik Vitzazka, Wendy K. Chung. De novo truncating variants in the AHDC1 gene encoding the AT-hook DNA-binding motif-containing protein 1 are associated with intellectual disability and developmental delay. Molecular Case Studies. 2015.

James A. Trippi, Luis F. Escobar, Megan Eileen Tucker, Eileen Myers. Genetic Diagnosis of Familial Hypercholesterolemia in a Community Lipid Clinic. Journal of Clinical Lipidology. 2015

Bai, Y., Stolz, J., Meyer, C. Cross analysis of whole genome deep sequencing data reveals over-presence of nonintronic insertions and deletions (INDELs). International Journal of Computational Biology and Drug Design. 8(4): 348-358. (2015).

Hassler, J.R., Scheuner, D.L., Wang, S., Han, J., Kodali, V.K., Li, P., Nguyen, J., George, J.S., Davis, C., Wu, S.P., Bai, Y., Sartor, M., Cavalcoli, J., Malhi, H., Baudouin, G., Zhang, Y., Yates III, J.R., Itkin-Ansari, P., Volkmann, N., and Kaufman, R.J. The IRE1α/XBP1s Pathway is Essential for the Glucose Response and Protection of β Cells. PLoS Biol. 13(10): e1002277.doi:10.1371/journal.pbio.1002277 (2015).

Liu, Y., Baker, S., Jiang, H., Stuart, G., Bai, Y. Correlating bladder cancer risk genes with their targeting microRNAs using MMiRNA-Tar. Genomics, Proteomics & Bioinformatics. 13(3):177-182 (2015). [Bioinformatics Software]

Grunst A.S., & Grunst M.L. Context-dependent relationships between multiple sexual pigments and paternal effort. Behav Ecol. 26: 1170-1179. (doi: 10.1093/beheco/arv066) (2015).

Jamison, A., Tuttle, E., Jensen, R., Bierly, G., & Gonser, R. Spatial ecology, landscapes, and the geography of vector-borne disease: A multi-disciplinary review. Applied Geography 63: 418-426. (2015).

Yang, H., Douglas, G., Monaghan, K.G., Retterer, K., Cho, M.T., Escobar, L.F., Tucker, M.E., Stoler, J., Rodan, L.H., Stein, D., Enns, G.M., Platt, J., Cox, R., Wheeler, P.G., Crain, C., Calhoun, A., Tryon, R., Richard, G., Vitzazka,P., & Chung., W.K. De novo truncating variants in the AHDC1 gene encoding the AT-hook DNA-binding motif-containing protein 1 are associated with intellectual disability and developmental delay. Cold Spring Harbor molecular case studies 1, a000562, doi:10.1101/mcs.a000562 (2015).

McCluskey, E.M., Mockford, S.W., Sands, K., Herman, T.B., Johnson, G., and Gonser, R.A.. In Press. Population genetic structure of Blanding’s turtle (Emydoidea blandingii) in New York. Journal of Herpetology (doi: 10.1670/14-027) (2015).

Betuel, A., Tuttle, E.M., & Gonser, R.A. In press. Genetic verification of dizygotic twin embryos in the White-throated Sparrow, Zonotrichia albicollis. Wilson Journal of Ornithology. 127(3): 498-502. (2015).

Rathbun, N.A., Grunst, A.S., Grunst, M.L., Hubbard, J.K., Safran, R.J., Gonser, R.A., & Tuttle, E.M. Quantitative color variation within and across morphs of the polymorphic White-throated Sparrow. Auk 132: 92-104. (2015).

Myers, N., Barad, J., Chao, C.-A., Gonser, R.A., Mikolaj, P., Steding, C., Stuart, G., & Tuttle, E.M. 2015. Wicked problems in genomics: Using interdisciplinary collaboration to promote responsible advocacy in addressing genomic risks. URMIS Insights. (February 2015).

Cohen, S.A. Tucker, M.E., & Delk, P. in Press. Genetic Counselor Workforce Issues: A survey of genetic counselors licensed in the state of Indiana. Journal of Genetic Counseling.


Rathbun, N.A., Grunst, A.S., Grunst, M.L., Hubbard, J.K., Safran, R.J., Gonser, R.A., & Tuttle, E.M. Quantitative color variation within and across morphs of the polymorphic White-throated Sparrow. Auk. 2014. In Press.

Tuttle, E.M., Sebastian, P.J., Posto, A.L., Soini, H.A., Novotny, M.V., & Gonser, R.A. Variation in Preen Oil Composition Pertaining to Season, Sex, and Genotype In the Polymorphic White-Throated Sparrow. Journal of Chemical Ecology. 2014. In Press.

Balakrishnan, C.N., Mukai, M., Gonser, R.A., Wingfield, J.C, London, S.E., Tuttle, E.M., & Clayton, D. Brain transcriptome sequencing and assembly of three songbird model systems for the study of social behavior. PeerJ 2:e396; DOI 10.7717/peerj.396. 2014.

Jensen, R.R., Gonser, R.A., and Joyner, C. Landscape factors that contribute to animal-vehicle collisions in two northern Utah canyons. Applied Geography. 50: 74-79. 2014.

Betuel, A.M., Tuttle, E.M., and Gonser, R.A. Sharp-shinned Hawk predation on a ground-nesting bird, the White-throated Sparrow. Wilson Journal of Ornithology. 126(1): 161–165. 2014.


Tucker ME, Kalb FM, Escobar LF (2013) Infant Spinocerebellar Ataxia Type 27: Early Presentation Due To a 13q33.1 Microdeletion Involving the FGF14 Gene. J Genet Syndr Gene Ther 4:208. doi:10.4172/2157-7412.1000208

Megan Tucker and Luis F. Escobar. Cleft Lip/Palate associated with 17p13.3 duplication involving a candidate gene (YWHAE). Clinical Genetics. Clin Genet 2013 Jul 31

Other Publications


Gonser, R.A. Principles of Biology I. Kendall-Hunt Publishing. 2014. ISBN: 978-1-4652-5698-0

Steding, C.E. Genetics: An Experimental Approach. Create Space; Amazon Publishing. 2014. ISBN: 978-1-5004-9055-3

Submissions (under consideration/review)

Myers, N., Mikolaj, P., and Steding, C.E. 2015. FDA Regulation of Laboratory-Developed Genetic Tests: A Wicked Problem in Need of an Interdisciplinary Solution?

Grunst A.S., Grunst M.L., Rathbun, N.A.*, Hubbard J.K., Saffran R.J., Gonser R.A., & Tuttle E.M. Submitted Phenotypic selection in a polymorphic species I: Disruptive selection on plumage coloration. Animal Behaviour.

Contact Information

Rusty Gonser, Ph.D., Director
Phone: (812) 237-2395

Nathan Myers, Ph.D., Associate Director
Phone: (812) 237-2504

Jeff Kinne, Ph.D., Associate Director
Phone: (812) 237-2136