Ph.D., Data Science and Engineering; University of Tennessee, Knoxville. 2019
B.S., Physiological Science; University of California, Los Angeles. 2011
B.S., Biochemistry; University of California, Los Angeles. 2011
Research Consultant;
Bioinformatics Computing Support,
High Performance and Scientific Computing,
Office of Innovative Technologies,
University of Tennesse, Knoxville.
2023 - Present.
Work closely with researchers to analyze biological data using high performance computing resources.
Postdoctoral Research Associate;
Computational and Predictive Biology group,
Oak Ridge National Laboratory.
2020 - 2023.
Multi-omics data analysis using machine learning.
Graduate Research Fellow;
University of Tennessee, Knoxville,
Oak Ridge National Laboratory.
2013 - 2019.
Developed models of microbial communities in oil-contaminated marine environments.
Post-Bachelor’s Research Assistant;
University of California, Los Angeles.
2011 - 2013.
Assisted development of transgenic Bacillus subtilis toward consolidated bioprocessing.
Teaching Assistant;
University of California, Los Angeles.
2011 - 2013.
Prepared and led discussion section for Biochemistry 153A (Introduction to Structure, Enzymes, and Metabolism).
Undergraduate Research Assistant;
University of California, Los Angeles.
2010 - 2011.
Examined transcriptional regulation of circadian clock genes in Arabidopsis thaliana.
Sullivan, K. A., Kainer, D., Lane, M., Cashman, M., Miller, J. I., Garvin, M. R., … & Program, V. M. V. (2024). Multi-omic network analysis identifies dysregulated neurobiological pathways in opioid addiction. Biological Psychiatry.
Sullivan, K. A., Lane, M., Cashman, M., Miller, J. I., Pavicic, M., Walker, A. M., … & Kainer, D. (2024). Analyses of GWAS signal using GRIN identify additional genes contributing to suicidal behavior. Communications Biology, 7(1), 1360.
Sullivan, K. A., Miller, J. I., Townsend, A., Morgan, M., Lane, M., Pavicic, M., … & Jacobson, D. A. (2024). MENTOR: multiplex embedding of networks for team-based omics research. bioRxiv.
Sullivan, K., Lane, M. J., Kainer, D., Blair, D. D., Chhetri, H. B., Wang, Y. Q., Morgan, M., Cashman, M., Miller, J. I., Cliff, A., Walker, A., Furches, A., Noshay, J., Drake, M., Ireland, A. J., Missaoui, A., Kang, Y., Dehal, P., Canon, S., Jacobson, D. (2024, January). Identifying Biological Pathways Underlying Switchgrass Bioenergy Traits Using Arabidopsis thaliana Exascale/Petascale Complexity Networks Deployed in KBase. In Plant and Animal Genome Conference/PAG 31 (January 12-17, 2024). PAG.
Kainer, D., Lane, M., Sullivan, K. A., Miller, J. I., Cashman, M., Morgan, M., … & Jacobson, D. A. (2024). RWRtoolkit: multi-omic network analysis using random walks on multiplex networks in any species. bioRxiv, 2024-07.
Griffiths, Z. G., Putt, A. D., Miller, J. I., Campa, M. F., Joyner, D. C., Pelz, O., … & Hazen, T. C. (2023). Comparing the response of the indigenous microbial community to crude oil amendment in oxic versus hypoxic conditions. Frontiers in Microbiomes, 2, 1270352.
Sullivan, K., Miller, J. I., Kainer, D., Lane, M., Cashman, M., Garvin, M. R., … & Jacobson, D. (2023). Network biology algorithms identify biological pathways underlying cigarette smoking behaviors. European Neuropsychopharmacology, 75, S98-S99.
Levin, M. G., Huffman, J. E., Verma, A., Sullivan, K. A., Rodriguez, A. A., Kainer, D., Garvin, M. R., Lane, M., Cashman, M., Miller, J. I., Won, H., Li, B., Luo, Y., Jarvik, G. P., Hakonarson, H., Jasper, E. A., Bick, A. G., Tsao, P. S., Ritchie, M. D., … Damrauer, S. M. (2023). Genetics of varicose veins reveals polygenic architecture and genetic overlap with arterial and venous disease. Nature Cardiovascular Research, 1-14. https://doi.org/10.1038/s44161-022-00196-5
Cope, K. R., Prates, E. T., Miller, J. I., Demerdash, O. N. A., Shah, M., Kainer, D., Cliff, A., Sullivan, K., Cashman, M., Lane, M., Matthiadis, A., Labb’e, J., Tschaplinski, T. J., Jacobson, D. A., & Kalluri, U. C. (2022). Exploring the role of plant lysin motif receptor-like kinases in regulating plant-microbe interactions in the bioenergy crop Populus. Computational and Structural Biotechnology Journal. https://doi.org/10.1016/j.csbj.2022.12.052
Paradis, C. J., Miller, J. I., Moon, J.-W., Spencer, S. J., Lui, L. M., Van Nostrand, J. D., Ning, D., Steen, A. D., McKay, L. D., Arkin, A. P., Zhou, J., Alm, E. J., & Hazen, T. C. (2022). Sustained Ability of a Natural Microbial Community to Remove Nitrate from Groundwater. Groundwater, 60(1), 99-111. https://doi.org/10.1111/gwat.13132
Mast, A. E., Wolberg, A. S., Gailani, D., Garvin, M. R., Alvarez, C., Miller, J. I., Jones, P., Aronow, B., & Jacobson, D. (2022). Response to comment on ‘SARS-CoV-2 suppresses anticoagulant and fibrinolytic gene expression in the lung.’ ELife, 11, e74951. https://doi.org/10.7554/eLife.74951
Sullivan, K. A., Lane, M., Cashman, M., Miller, J. I., Pavicic, M., Walker, A. M., Cliff, A., Romero, J., Qin, X., Lindquist, J., Mullins, N., Docherty, A., Coon, H., Ruderfer, D. M., Consortium, I. S. G., Program, V. M. V., Workgroup, M. S. E., Garvin, M. R., Pestian, J. P., … Kainer, D. (2022). Digging deeper into GWAS signal using GRIN implicates additional genes contributing to suicidal behavior. In MedRxiv (p. 2022.04.20.22273895). https://doi.org/10.1101/2022.04.20.22273895
Prates, E. T., Garvin, M. R., Jones, P., Miller, J. I., Sullivan, K. A., Cliff, A., Gazolla, J. G. F. M., Shah, M. B., Walker, A. M., Lane, M., Rentsch, C. T., Justice, A., Pavicic, M., Romero, J., & Jacobson, D. (2022). Antiviral Strategies Against SARS-CoV-2: A Systems Biology Approach. In J. J. H. Chu, B. A. Ahidjo, & C. K. Mok (Eds.), SARS-CoV-2: Methods and Protocols (pp. 317-351). Springer US. https://doi.org/10.1007/978-1-0716-2111-0_19
Mast, A. E., Wolberg, A. S., Gailani, D., Garvin, M. R., Alvarez, C., Miller, J. I., Aronow, B., & Jacobson, D. (2021). SARS-CoV-2 suppresses anticoagulant and fibrinolytic gene expression in the lung. ELife, 10, e64330. https://doi.org/10.7554/eLife.64330
Garvin, M. R., Alvarez, C., Miller, J. I., Prates, E. T., Walker, A. M., Amos, B. K., Mast, A. E., Justice, A., Aronow, B., & Jacobson, D. (2020). A mechanistic model and therapeutic interventions for COVID-19 involving a RAS-mediated bradykinin storm. ELife, 9, e59177. https://doi.org/10.7554/eLife.59177
Miller, J. I., Techtmann, S., Joyner, D., Mahmoudi, N., Fortney, J., Fordyce, J. A., GaraJayeva, N., Askerov, F. S., Cravid, C., Kuijper, M., Pelz, O., & Hazen, T. C. (2020). Microbial Communities across Global Marine Basins Show Important Compositional Similarities by Depth. MBio. https://doi.org/10.1128/mBio.01448-20
Miller, J. I. (2019). Potential for oil hydrocarbon biodegradation by microbial communities in marine environments. https://trace.tennessee.edu/utk_graddiss/5712
Miller, J. I., Techtmann, S., Fortney, J., Mahmoudi, N., Joyner, D., Liu, J., Olesen, S., Alm, E., Fernandez, A., Gardinali, P., GaraJayeva, N., Askerov, F. S., & Hazen, T. C. (2019). Oil Hydrocarbon Degradation by Caspian Sea Microbial Communities. Frontiers in Microbiology, 10. https://www.frontiersin.org/article/10.3389/fmicb.2019.00995