Homepage of Dr. Suoqin Jin @ Wuhan University

Selected publications (# Equal-contribution; * Co-corresponding authors)

Inference and analysis of cell-cell communication using CellChat

S Jin, C Guerrero-Juarez, L Zhang, I Chang, R Ramos, CH Kuan, P Myung, M Plikus^*, Q Nie^*.

Nature Communications, 12: 1088, 2021 (Citations > #7000)

CellChat for systematic analysis of cell-cell communication from single-cell transcriptomics
S Jin^*, M Plikus, Q Nie^*.

Nature Protocols , 20:180–219, 2025

Identifying spatial single-cell-level interactions with graph transformer
X Cheng, S Jin^*.

Nature Machine Intelligence, https://doi.org/10.1038/s42256-026-01191-2, 2026

MultiSP deciphers tissue structure and multicellular communication from spatial multi-omics data
C Mo, X Zou, S Jin^*.

Cell Genomics , 6:101141, 2026

Single-cell transcriptomic analysis reveals diversity within mammalian spinal motor neurons
ES Liau^#, S Jin^#, et al.

Nature Communications, 14:46, 2023

scAB detects multiresolution cell states with clinical significance by integrating single-cell genomics and bulk sequencing data
Q Zhang, S Jin^*, X Zou^*.

Nucleic Acids Res, 50(21):12112-12130, 2022

scAI: an unsupervised approach for integrative analysis of parallel single cell transcriptomic and epigenomic profiles

S Jin^#, L Zhang^#, Q Nie^*

Genome Biology, 21(1)：25, 2020

Defining epidermal basal cell states during skin homeostasis and wound healing using single-cell transcriptomics
D Haensel^#, S Jin^#, R Cinco, P Sun, Q Nguyen, Z Cang, M Dragan, A MacLean, K Kessenbrock, E Gratton, Q Nie^*, Xing Dai^*

Cell Reports, 30: 3932-3947, 2020

Murine interfollicular epidermal differentiation is gradualistic with GRHL3 controlling progression from stem to transition cell states
Z Lin, S Jin, J Chen, Z Li, Z Lin, L Tang, Q Nie^*, B Andersen^*

Nature Communications, 11(1): 5434, 2020

Circadian clock control of Interferon-sensitive gene expression in murine skin
E Greenberg, M Marshall, S Jin, S Venkatesh, M Dragan, L Tsoi, J Gudjonsson, Q Nie, J Takahashi, B Andersen^*

Proc. Natl. Acad. Sci. U.S.A. 117(11):5761- 5771, 2020

CA1-projecting subiculum neurons facilitate object-place learning
Y Sun^#, S Jin^#, X Lin, L Chen, X Qiao, L Jiang, P Zhou, K Johnston, P Golshani, Q Nie, T Holmes, D Nitz^*, X Xu^*

Nature Neuroscience. 22(11)：1857-1870, 2019

Single-cell analysis reveals fibroblast heterogeneity and myeloid-derived adipocyte progenitors in murine skin wounds
C Guerrero-Juarez, P Dedhia, S Jin, R Ruiz-Vega, D Ma, Y Liu, K Yamaga, O Shestova, D Gay, Z Yang, K Kessenbrock, Q Nie, W Pear, G Cotsarelis^*, and M Plikus^*

Nature Communications. 10(1): 650, 2019

scEpath: energy landscape-based inference of transition probabilities and cellular trajectories from single-cell transcriptomic data
S Jin, A MacLean, T Peng, Q Nie^*

Bioinformatics. 34(12): 2077-2086, 2018

Trajectory control in nonlinear networked systems and its applications to complex biological systems
S Jin, D Wang, X Zou^*

SIAM Journal on Applied Mathematics. 78(1)：629–649, 2018