Yasin Uzun, PhD, MSc - Penn State Cancer Institute
Researcher Profile
Yasin Uzun, PhD, MSc
Assistant Professor, Department of Pediatrics
Assistant Professor, Department of Biochemistry and Molecular Biology
Assistant Professor, Department of Biochemistry and Molecular Biology
Scientific Program:Next-Generation Therapies
Research Interests
Dr. Yasin Uzun uses bioinformatics and genomics methods to understand gene regulation at the molecular level. For this purpose, he employs Systems Biology approaches to utilize next generation sequencing data, with a particular emphasis on single-cell genomics for modeling epigenetic control. His studies in this field reveal the molecular mechanisms that switch the genes on and off during cell differentiation. In this way, he investigates how the dysregulation in these control mechanisms are associated with various genetic diseases with a particular focus on cancer and how this information can present novel therapeutic opportunities.
- Population
- Transcriptome
- Epigenomics
- Neoplasms
- Epigenome
- Hematopoietic Stem Cells
- Gene Regulatory Networks
- Hemangioblasts
- Genes
- Endothelium
- T-Lymphocytes
- Chromatin
Recent Publications
2023
Hattori, T, Fundora, KA, Hamamoto, K, Opozda, DM, Liang, X, Liu, X, Zhang, J, Uzun, Y, Takahashi, Y & Wang, HG 2024, 'ER stress elicits non-canonical CASP8 (caspase 8) activation on autophagosomal membranes to induce apoptosis', Autophagy, vol. 20, no. 2, pp. 349-364. https://doi.org/10.1080/15548627.2023.2258701
Uzun, Y, Wu, H & Tan, K 2023, Integrating Single-Cell Methylome and Transcriptome Data with MAPLE. in Methods in Molecular Biology. Methods in Molecular Biology, vol. 2624, Humana Press Inc., pp. 43-54. https://doi.org/10.1007/978-1-0716-2962-8_4
Morral, C, Ghinnagow, R, Karakasheva, T, Zhou, Y, Thadi, A, Li, N, Yoshor, B, Soto, GE, Chen, CH, Aleynick, D, Weinbrom, S, Fulton, MK, Uzun, Y, Bewtra, M, Kelsen, JR, Lengner, CJ, Tan, K, Minn, AJ & Hamilton, KE 2023, 'Isolation of Epithelial and Stromal Cells from Colon Tissues in Homeostasis and Under Inflammatory Conditions', Bio-protocol, vol. 13, no. 18, e4825. https://doi.org/10.21769/BioProtoc.4825
2022
Yang, Y, Mumau, M, Tober, J, Zhu, Q, Bennett, L, Hong, C, Sung, D, Keller, T, Uzun, Y, Gao, P, Shewale, S, Chen, M, Yang, J, Chen, X, Thomas, SA, Tan, K, Speck, NA & Kahn, ML 2022, 'Endothelial MEKK3-KLF2/4 signaling integrates inflammatory and hemodynamic signals during definitive hematopoiesis', Blood, vol. 139, no. 19, pp. 2942-2957. https://doi.org/10.1182/blood.2021013934
Wolpaw, AJ, Grossmann, LD, Dessau, JL, Dong, MM, Aaron, BJ, Brafford, PA, Volgina, D, Pascual-Pasto, G, Rodriguez-Garcia, A, Uzun, Y, Arsenian-Henriksson, M, Powell, DJ, Bosse, KR, Kossenkov, A, Tan, K, Hogarty, MD, Maris, JM & Dang, CV 2022, 'Epigenetic state determines inflammatory sensing in neuroblastoma', Proceedings of the National Academy of Sciences of the United States of America, vol. 119, no. 6, e2102358119. https://doi.org/10.1073/pnas.2102358119
Human Tumor Atlas Network 2022, 'MITI minimum information guidelines for highly multiplexed tissue images', Nature methods, vol. 19, no. 3, pp. 262-267. https://doi.org/10.1038/s41592-022-01415-4
Chen, C, Yu, W, Alikarami, F, Qiu, Q, Chen, CH, Flournoy, J, Gao, P, Uzun, Y, Fang, L, Davenport, JW, Hu, Y, Zhu, Q, Wang, K, Libbrecht, C, Felmeister, A, Rozich, I, Ding, YY, Hunger, SP, Felix, CA, Wu, H, Brown, PA, Guest, EM, Barrett, DM, Bernt, KM & Tan, K 2022, 'Single-cell multiomics reveals increased plasticity, resistant populations, and stem-cell–like blasts in KMT2A-rearranged leukemia', Blood, vol. 139, no. 14, pp. 2198-2211. https://doi.org/10.1182/blood.2021013442
2021
Chen, GM, Chen, C, Das, RK, Gao, P, Chen, CH, Bandyopadhyay, S, Ding, YY, Uzun, Y, Yu, W, Zhu, Q, Myers, RM, Grupp, SA, Barrett, DM & Tan, K 2021, 'Integrative bulk and single-cell profiling of premanufacture t-cell populations reveals factors mediating long-term persistence of car t-cell therapy', Cancer Discovery, vol. 11, no. 9, pp. 2186-2199. https://doi.org/10.1158/2159-8290.CD-20-1677
Uzun, Y, Wu, H & Tan, K 2021, 'Predictive modeling of single-cell DNA methylome data enhances integration with transcriptome data', Genome research, vol. 31, no. 1, pp. 101-109. https://doi.org/10.1101/gr.267047.120
2020
Zhu, Q, Gao, P, Tober, J, Bennett, L, Chen, C, Uzun, Y, Li, Y, Howell, ED, Mumau, M, Yu, W, He, B, Speck, NA & Tan, K 2020, 'Developmental trajectory of prehematopoietic stem cell formation from endothelium', Blood, vol. 136, no. 7, pp. 845-856. https://doi.org/10.1182/blood.2020004801
Yu, W, Uzun, Y, Zhu, Q, Chen, C & Tan, K 2020, 'ScATAC-pro: A comprehensive workbench for single-cell chromatin accessibility sequencing data', Genome biology, vol. 21, no. 1, 94. https://doi.org/10.1186/s13059-020-02008-0
Human Tumor Atlas Network 2020, 'The Human Tumor Atlas Network: Charting Tumor Transitions across Space and Time at Single-Cell Resolution', Cell, vol. 181, no. 2, pp. 236-249. https://doi.org/10.1016/j.cell.2020.03.053
Gao, P, Chen, C, Howell, ED, Li, Y, Tober, J, Uzun, Y, He, B, Gao, L, Zhu, Q, Siekmann, AF, Speck, NA & Tan, K 2020, 'Transcriptional regulatory network controlling the ontogeny of hematopoietic stem cells', Genes and Development, vol. 34, no. 13-14. https://doi.org/10.1101/GAD.338202.120