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Peng X†, Smithy J, Yosofvand M, Kostrzewa C, Bleile M, Ehrich F, Lee J, Postow M, Callahan M, Panageas K†, Shen R†, “Scalable topic modelling decodes spatial tissue architecture for large-scale multiplexed imaging analysis”. Nature Communications (5-year impact factor 17.2). 2025. 16, 6619. doi:10.1038/s41467-025-61821-y † First author and co-corresponding author
J. W. Smithy*, X. Peng*, F. Ehrich, A. Moy, N. Aleynick, Y. Li, C. Maher, J. Lee, K. S. Panageas, T. Hollman, M. K. Callahan, R. Shen. Quantitatively defined stromal B cell aggregates are associated with response to checkpoint inhibitors in unresectable melanoma. Cell Reports (5-year impact factor: 8.1). 2025; 44(4). doi:10.1016/j.celrep.2025.115554 * Co-first Author
A.S. Rolig*, X. Peng*, E.R. Sturgill, C. Mick, G.H. Mcgee, M. Kasiewicz, W. Miller, Y. Koguchi, M. Adamow, J. Lee, J. Kaufmann, N. Yanamandra, S. Griffin, J. Smothers, C. Garnet-Benson, I. Jarchem, R. Shen, M. K. Callahan, W. L. Redmond. The response to anti–PD-1 and anti–LAG-3 checkpoint blockade is associated with regulatory T cell reprogramming. Science Translational Medicine (5-year impact factor: 16.0). 2025. 17, eadk3702. doi:10.1126/scitranslmed.adk3702 * Co-first Author
X. Peng, J. Lee, M. Adamow, C. Maher, M. A. Postow, M. K. Callahan, K. S. Panageas, R. Shen. A topic modeling approach reveals the dynamic T cell composition of peripheral blood during cancer immunotherapy. Cell Reports Methods (5-year impact factor: 4.8), 2023, 3(8). 100546. doi: 10.1016/j.crmeth.2023.100546.
X. Peng, K. S. Dorman. Accurate estimation of molecular counts from amplicon sequence data with unique molecular identifiers. Bioinformatics (5-year impact factor: 7.1). 2023. 39(1), btad002. doi: 10.1093/bioinformatics/btad002.
Dorman K, Peng X, Zhang Y. Denoising Methods for Inferring Microbiome Community Content and Abundance. Book chapter for “Statistical Analysis of Microbiome Data” in the Frontiers in Probability and the Statistical Sciences series by Springer. 2021;:13-25.
X. Peng, K. S. Dorman. AmpliCI: A High-resolution Model-Based Approach for Denoising Illumina Amplicon Data. Bioinformatics (5-year impact factor: 7.1). 2020. doi.org/10.1093/bioinformatics/btaa648