2024
- 14. Madeline Hughes, Akshaya Thoutam (2025, April). Evaluating the role of pre-training dataset size, diversity, and composition on single-cell foundation model performance. RECOMB 2025 Research in Computational Molecular Biology.
- 13. Zeinab Navidi, Akshaya Thoutam, Madeline Hughes, Srivatsan Raghavan, Peter Winter, Lorin Crawford, and Ava P. Amini. Adaptive Resampling For Improved Cellular Representation Learning in Imbalanced Single-cell Samples. (2025). In submission.
- 12. Alan DenAdel, Madeline Hughes, Akshaya Thoutam, Ava P. Amini, and Lorin Crawford. Evaluating the role of pre-training dataset size and diversity on single-cell foundation model performance (2024). Peer review at Nature Methods.
- 11. Ajay Nadig, Akshaya Thoutam, Madeline Hughes, Srivatsan Raghavan, Peter Winter, Ava P. Amini, and Lorin Crawford. Consequences of training data composition for deep learning models in single cell biology (2024). Peer review at Genome Biology.
2023
- 10. Greg Gibson, John D Rioux, Judy H Cho, Talin Haritunians, Akshaya Thoutam, Maria T Abreu, Steven R Brant, Subra Kugathasan, Jacob L McCauley, Mark Silverberg, Dermot McGovern, Eleven Grand Challenges for Inflammatory Bowel Disease Genetics and Genomics, Inflammatory Bowel Diseases, 2024;, izae269, https://doi.org/10.1093/ibd/izae269
- 9. Akshaya Thoutam, Greg Gibson (2023, April). Pan-cancer atlas of tumor-infiltrating B cells. Georgia Tech Undergraduate Research Symposium.
- 8. A single cell and spatial atlas of ER+ breast cancer response to pembrolizumab and radiation therapy. Nature. In submission.
- 7. Hira Anis, Akshaya Thoutam, Makeda Hailu, Vishal Dhere, Greg Gibson, Erin Connolly (2023, April) Single- cell Pan-cancer atlas reveals diversity and plasticity of tumor-infiltrating plasma cells. Atlanta Workshop for Single Cell Omics 2023
- 6. Akshaya Thoutam, William Watson, Mohan William, Regina Nwosu (April 2023). 5HT2c against lorcaserin on spontaneous nerve root 3 activity in crayfish model. Georgia Tech Undergraduate Neuroscience Symposium.
2022
- 5. Akshaya Thoutam, Erin Connolly, Greg Gibson (2022, April). A Pan-cancer Single-cell Transcriptional Atlas of Tumor-infiltrating Plasma Cells. Atlanta Workshop for Single Cell Omics 2022.
- 4. Akshaya Thoutam & Greg Gibson (2022, October). A Pan-cancer single-cell transcriptional atlas of tumor- infiltrating B cells. National Symposium for Undergraduate Research.
2021
- 3. Akshaya Thoutam, Narasiah & Kolliputi (2021). Epigenetics of pulmonary diseases. In T. Tollefsbol (Ed.), Medical Epigenetics (2nd ed., pp. 45-67). Publisher. ISBN: 9780128239285
- 2. Nasrin Hooshmand, Akshaya Thoutam, Max Anikovskiy, Hagar Labouta & Mostafa El-Sayed (2021). Localized Surface Plasmon Resonance as a Tool to Study Protein Corona Formation on Nanoparticles. Journal of Physical Chemistry C, 125(45), 24765–24776
2020
- 1. Akshaya Thoutam, Mason Breitzig, Richard Lockey & Narasiah Kolliputi (2020). Coronavirus: a shift in focus away from IFN response and towards other inflammatory targets. Journal of cell communication and signaling, 1–2.