For a full list of publications, please see my CV or my Google Scholar page.
‡ These authors contributed equally
Shi, Z.‡, Morabito, S.‡, et al. (2025). In silico module perturbation analysis unlocks a functional understanding of the dynamic gene networks in single-cell data. (Manuscript in preparation)
Shi, Z., Das, S., Morabito, S., Miyoshi, E., & Swarup, V. (2022). Protocol for single-nucleus ATAC sequencing and bioinformatic analysis in frozen human brain tissue. STAR Protocols, 3(3), 101491. DOI: 10.1016/j.xpro.2022.101491. ArchR2Signac function in the ArchRtoSignac R package