Biography
Gretta Kellogg is an Affiliate Faculty member at Penn State Harrisburg and instructor for A-I 285: Experiential Learning Skills Lab. She brings more than 20 years of experience leading large-scale research computing, artificial intelligence, and data-intensive innovation initiatives across higher education and industry. As Assistant Director of Penn State's Center for Applications of AI and Machine Learning to Industry (AIMI) and Principal HPC Engineering Program Manager for the Institute for Computational and Data Sciences (ICDS), she develops AI research infrastructure, cultivates interdisciplinary collaborations, and supports strategic research partnerships. Her teaching focuses on helping students apply AI to real-world challenges, develop innovative solutions, and build the professional skills needed for successful careers in an AI-enabled workforce.
Research Interests
- Protein structure prediction and design for high-throughput computing
- Artificial intelligence and machine learning
- Research computing and high-performance computing
- Epigenomic and genomic research infrastructure
- Scientific data management and visualization
- AI-enabled extended reality
Publications
Shao, D.; Kellogg, G.; Nematbakhsh, A.; Kuntala, P. K.; Mahony, S.; Pugh, B. F.; Lai, W. K. M. “PEGR: A Flexible Management Platform for Reproducible Epigenomic and Genomic Research.” Genome Biology. 2022, 23(1):99. https://github.com/seqcode/pegr
Sun, Q.; Nematbakhsh, A.; Kuntala, P. K.; Kellogg, G.; Pugh, B. F.; Lai, W. K. M. “STENCIL: A Web Templating Engine for Visualizing and Sharing Life Science Datasets.” PLoS Computational Biology. 2022, 18(2):e1009859. https://github.com/CEGRcode/stencil
Rossi, M. J.; Kuntala, P. K.; Lai, W. K. M.; Yamada, N.; Badjatia, N.; Mittal, C.; Kuzu, G.; Bocklund, K.; Farrell, N. P.; Blanda, T. R.; Mairose, J. D.; Basting, A. V.; Mistretta, K. S.; Rocco, D. J.; Perkinson, E. S.; Kellogg, G. D.; Mahony, S.; Pugh, B. F. “A High-Resolution Protein Architecture of the Budding Yeast Genome.” Nature. 2021, 592, 309–314. https://github.com/CEGRcode/2021-Rossi_Nature
Verma, S.; de Andrade, M.; Tromp, G.; Kuivaniemi, H.; Pugh, E.; Namjou-Khales, B.; Mukherjee, S.; Jarvik, G.; Kottyan, L.; Burt, A.; Bradford, Y.; Armstrong, G.; Derr, K.; Crawford, D.; Haines, J.; Li, R.; Crosslin, D.; Ritchie, M. “Imputation and Quality Control Steps for Combining Multiple Genomewide Datasets.” Frontiers in Genetics. 2014, 5.
Ritchie, M. D.; Setia, S. Z.; Armstrong, G. D.; Armstrong, L.; Bradford, Y.; Crawford, D. C.; Haines, J. L. “Merging Genomic Data for Research in the Electronic Medical Records and GEnomics Network: Lessons Learned in eMERGE.” Genetic Epidemiology. 2012, 36(7), 740.
Mathew, V. S.; Kellogg, G. D.; Lai, W. K. M.; Kumara, S. R. “Stable Continuous-Time Consistency Distillation: An Empirical Study with a Multistep Extension.” Under review, OpenReview.net.
Mathew, V. S.; Kellogg, G. D.; Lai, W. K. M. “Protein Structure Prediction and Design for High-Throughput Computing.” bioRxiv. 2025. doi:10.1101/2025.07.18.665594. https://github.com/EpiGenomicsCode/OmniFold
Verma, A.; Kellogg, G.; Sorokina, N. “Community Engagement through AI-Enabled Extended Reality to Support Micro-reactors Deployment.” 2024 Pacific Basin Nuclear Conference, October 7–10, 2024.
Kellogg, G.; Sorokina, N. “Bringing AI Innovation to the Future of Finance.” 2024 Applied Finance Conference, Financial Management Association, New York, NY.
Shao, D.; Kellogg, G.; Mahony, S.; Lai, W.; Pugh, B. F. “PEGR: A Management Platform for ChIP-Based Next Generation Sequencing Pipelines.” Practice and Experience in Advanced Research Computing. 2020, 285–292.
Verma, S. S.; Armstrong, G.; Crawford, D. C.; Bradford, Y.; de Andrade, M.; Kullo, I. J.; Tromp, G.; Kuivaniemi, H.; Armstrong, L. L.; Hayes, M. G.; Keating, B.; Crosslin, D. R.; Jarvik, G. P.; Namjou, B.; Bookman, E. B.; Li, R.; Ritchie, M. D. “Performance of Two Imputation Methods on Large-Scale Data: Experiences in the eMERGE Network.” ASHG 2013, October 1, 2013.
Ritchie, M. D.; Setia, S.; Armstrong, G.; Armstrong, L.; Bradford, Y.; Crawford, D. C.; Crosslin, D. R.; de Andrade, M.; Doheny, K. F.; Hayes, M. G.; Jarvik, G. P.; Kullo, I.; Li, R.; McCarty, C. A.; Mirel, D.; Olson, L.; Purcell, S.; Pugh, E. W.; Tromp, G.; Kuivaniemi, H.; Lotay, V.; Gottesman, O.; Haines, J. L.; Jarvik, G. P. “Merging Genomic Data for Research in the Electronic Medical Records and GEnomics Network: Lessons Learned in eMERGE.” ASHG 2012, August 31, 2012.
Holzinger, E. R.; Dudek, S. M.; Torstenson, E. S.; Verma, A.; Frase, A. T.; Armstrong, G. D.; Bush, W. S.; Turner, S. D.; Ritchie, M. D. “ATHENA: The Analysis Tool for Heritable and Environmental Network Associations.” Pacific Symposium on Biocomputing. 2012.
Katiyar, N. V.; Frase, A.; Wallace, J.; Torstenson, E.; Buchanan, C.; Armstrong, G. D.; Pendergrass, S.; Ritchie, M. D. “Biofilter: Software for the Integration of Biological Domain Knowledge for Genomics.” Pacific Symposium on Biocomputing. 2012.
Setia, S.; Grady, B. J.; Wallace, J. R.; Dudek, S. M.; Armstrong, G. D.; Ritchie, M. D. “PLATO: Platform for the Analysis, Translation and Organization of Large-Scale Data.” Pacific Symposium on Biocomputing. 2012.