金锁钦｜武汉大学｜学者主页

2026

Decoding and steering spatially resolved cellular dynamics

Jiahao Wu, Suoqin Jin

Molecular Systems Biology

DOI

2026

Identifying spatial single-cell-level interactions with graph transformer

Xiangzheng Cheng, Suoqin Jin

Nature Machine Intelligence

DOI

2026

MultiSP deciphers tissue structure and multicellular communication from spatial multi-omics data

Chenfeng Mo, Xiufen Zou, Suoqin Jin

Cell Genomics

DOI

2026

Deciphering transcriptome complexity via long‐read sequencing

Chuwen Xu, Jia Li, Chenxi Yin, Keying Li, Tian Wang, Shiwen Gao, Yue Yu, Cheng Chang, Ye Wang, Guoqing Tong, Liang Gong, Wen Hu, Guoliang Chai, Yilai Han, Qian Qin, Suoqin Jin, Xiufen Zou, Bo Li, Tianyuan Zhang, Ana Conesa, Yunhao Wang, Dingjie Wang

iMeta

DOI

2026

Integrating tumor–immune mechanistic modeling with transcriptomics reveals pattern-driven prognostic biomarkers in tumors

Ke Qi, Suoqin Jin, Han Ma, Tengfei Wang, Yijun Lou, Qing Hua Nie, Xiufen Zou

Proceedings of the National Academy of Sciences

DOI

2026

Adhesome-targeting shRNA modulates inferred cell fate trajectories and cell-cell communication during iPSC reprogramming

Tri Andrew Q. Phan, Nolan Origer, Edouard Aleman, Kehan Ren, HanJuan Shao, Changhan He, Suoqin Jin, Qing Hua Nie, Timothy L. Downing

Mechanobiology

DOI

2026

Cytochrome P450 1B1 directs pathogenic Th17 cell generation and autoimmune disease by fine-tuning redox homeostasis and mitochondrial integrity

Wenhao Hu, Yunqing Sun, Jie Sun, Yue Liang, Suoqin Jin, Jing Liu, Bing Wu

Proceedings of the National Academy of Sciences

DOI

2026

Improving severity grading of chemotherapy-induced myelosuppression in AML via data-driven and model-based deep learning

Yu Zhou, Yuyang Xiao, Qian Wang, Chenfeng Mo, Rui Cao, Hongli Liu, Xin Ma, Li Fu, Huimin Gao, Li Xu, Suoqin Jin, Fuling Zhou, Xiufen Zou

npj Systems Biology and Applications

DOI

2026

Cell-Cell Communication Inference and Analysis: Biological Mechanisms, Computational Approaches, and Future Opportunities

Xiangzheng Cheng, Haili Huang, Ye Su, Qing Hua Nie, Xiufen Zou, Suoqin Jin

CSIAM transactions on life sciences.

DOI

2025

Integrating multiscale mathematical modeling and multidimensional data reveals the effects of epigenetic instability on acquired drug resistance in cancer

Shun Wang, Jinzhi Lei, Xiufen Zou, Suoqin Jin

PLoS Computational Biology

DOI

2025

PITCH: A Pathway-Induced Prioritization of Personalized Cancer Driver Genes Based on Higher-Order Interactions

Yuhe Wang, Suoqin Jin, Xiufen Zou

IEEE Journal of Biomedical and Health Informatics

DOI

2024

Single-cell transcriptomics reveals aberrant skin-resident cell populations and identifies fibroblasts as a determinant in rosacea

Mengting Chen, Li Chun Yang, Peijie Zhou, Suoqin Jin, Zheng Qun Wu, Zixin Tan, Wenqin Xiao, San Xu, Yan Ning Zhu, Mei Wang, Dan Jian, Fangfen Liu, Yan Tang, Zhixiang Zhao, Yingxue Huang, Wei Shi, Hongfu Xie, Qing Hua Nie, Ben Wang, Zhili Deng, Ji Li

Nature Communications

DOI

2024

CellChat for systematic analysis of cell–cell communication from single-cell transcriptomics

Suoqin Jin, Maksim V. Plikus, Qing Hua Nie

Nature Protocols

DOI

2024

A novel multiscale framework for delineating cancer evolution from subclonal compositions

Zhihao Yao, Suoqin Jin, Fuling Zhou, Junbai Wang, Kai Wang, Kai Wang, Xiufen Zou

Journal of Theoretical Biology

DOI

2023

Signalling by senescent melanocytes hyperactivates hair growth

Xiaojie Wang, Xiaojie Wang, Raúl Ramos, Anne Q. Phan, Kosuke Yamaga, Jessica L. Flesher, Shan Jiang, Ji Won Oh, Suoqin Jin, Sohail Jahid, Chen‐Hsiang Kuan, Truman Kt Nguyen, Heidi Yahan Liang, Nitish Udupi Shettigar, Renzhi Hou, Kevin H. Tran, Andrew Nguyen, Kimberly Vu, Jennie L. Phung, Jonard P Ingal, Katelyn M Levitt, Xiaoling Cao, Yingzi Liu, Zhili Deng, Nobuhiko Taguchi, Vanessa M. Scarfone, Guangfang Wang, Kara Nicole Paolilli, Xiaoyang Wang, Xiaoyang Wang, Christian Fernando Guerrero‐Juarez, Ryan T. Davis, Elyse Noelani Greenberg, Rolando Ruiz, Priya Vasudeva, Rabi Murad, Lily Halida Putri Widyastuti, Hyelim Lee, Kevin John McElwee, Alain‐Pierre Gadeau, Devon A. Lawson, Bogi Andersen, Ali Mortazavi, Zhengquan Yu, Qing Hua Nie, Takahiro Kunisada, Michael Karin, Jan Peter Tuckermann, Jeffrey D. Esko, Anand K. Ganesan, Ji Li, Maksim V. Plikus

Nature

DOI

2023

Single-cell transcriptomic analysis reveals diversity within mammalian spinal motor neurons

Ee Shan Liau, Suoqin Jin, Yen‐Chung Chen, Wei-Szu Liu, Maëliss Calon, Stéphane Nedelec, Qing Hua Nie, Jun‐An Chen

Nature Communications

DOI

2023

Network Evolution Model-based prediction of tumor mutation burden from radiomic-clinical features in endometrial cancers

Qing Tan, Qian Wang, Suoqin Jin, Fuling Zhou, Xiufen Zou

BMC Cancer

DOI

2023

Stable maternal proteins underlie distinct transcriptome, translatome, and proteome reprogramming during mouse oocyte-to-embryo transition

Hongmei Zhang, Shu‐Yan Ji, Ke Zhang, Yuling Chen, Jia Ming, Feng Kong, Lijuan Wang, Shun Wang, Zhuoning Zou, Zhuqing Xiong, Kai Xu, Zili Lin, Bo Huang, Ling Liu, Qiang Fan, Suoqin Jin, Haiteng Deng, Wei Xie

Genome biology

DOI

2022

scAB detects multiresolution cell states with clinical significance by integrating single-cell genomics and bulk sequencing data

Qinran Zhang, Suoqin Jin, Xiufen Zou

Nucleic Acids Research

DOI

2022

Wound healing in aged skin exhibits systems-level alterations in cellular composition and cell-cell communication

Remy Vu, Suoqin Jin, Peng Sun, Daniel Haensel, Quy Nguyen, Morgan Dragan, Kai Kessenbrock, Qing Hua Nie, Xing Dai

Cell Reports

DOI

2022

Computational exploration of cellular communication in skin from emerging single-cell and spatial transcriptomic data

Suoqin Jin, Raúl Ramos

Biochemical Society Transactions

DOI

2022

Accurate prediction of glioma grades from radiomics using a multi-filter and multi-objective-based method

Jingren Niu, Qing Tan, Xiufen Zou, Suoqin Jin

Mathematical Biosciences & Engineering

DOI

2022

Multimodal analyses of vitiligo skin idenitfy tissue characteristics of stable disease

Jessica Shiu, L. Zhang, G. Lentsch, Jessica L. Flesher, Suo-Qin Jin, C. Polleys, S. Jo, C. Mizzoni, P. Mobasher, Jasmine Kwan, F. Rius-Díaz, B. Tromberg, I. Georgakoudi, Qing Nie, M. Balu, A. Ganesan

JCI Insight

DOI

2021

Identification of Intercellular Signaling Changes Across Conditions and Their Influence on Intracellular Signaling Response From Multiple Single-Cell Datasets

Mengqian Hao, Xiufen Zou, Suoqin Jin

Frontiers in Genetics

DOI

2021

Single-cell transcriptomic analysis unveils spinal motor neuron subtype diversity underpinning the water-to-land transition in vertebrates

Ee Shan Liau, Suo-Qin Jin, Yen-Chung Chen, Wei-Szu Liu, Luok Wen Yong, Chang-Tai Tsai, M. Calon, Jr-Kai Yu, Yi-Hsien Su, S. Nedelec, Qing Nie, Jun-An Chen

bioRxiv

DOI

2021

The landscape of cell-cell communication through single-cell transcriptomics

A. Almet, Z. Cang, Suo-Qin Jin, Qing Nie

Current Opinion in Systems Biology

DOI

2021

Tracking longitudinal population dynamics of single neuronal calcium signal using SCOUT

Kevin Johnston, S. Grieco, Hai Zhang, Suo-Qin Jin, Xiang-Min Xu, Qing Nie

Cell Reports Methods

DOI

2021

In-vivo optical microscopy and single cell transcriptomics approaches provide insights into therapeutic response of vitiligo

G. Lentsch, Jessica Shiu, Jessica L. Flesher, P. Mobasher, C. Polleys, C. Mizzoni, K. König, Suo-Qin Jin, Lihua Zhang, B. Tromberg, Qing Nie, I. Georgakoudi, A. Ganesan, M. Balu

DOI

2021

Multimodal Analyses of Stable Vitiligo Skin Identify Tissue Interactions That Control Disease Persistence

Jessica Shiu, Lihua Zhang, G. Lentsch, Jessica L. Flesher, Suo-Qin Jin, C. Polleys, S. Jo, C. Mizzoni, P. Mobasher, Jasmine Kwan, Francisca Ruis-Diaz, B. Tromberg, I. Georgakoudi, Qing Nie, M. Balu, A. Ganesan

bioRxiv

DOI

2020

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

Suo-Qin Jin, Lihua Zhang, Qing Nie

Genome Biology

DOI

2020

Inference and analysis of cell-cell communication using CellChat

Suo-Qin Jin, C. Guerrero-Juarez, Lihua Zhang, Ivan Chang, Raul Ramos, Chen-Hsiang Kuan, P. Myung, M. Plikus, Qing Nie

Nature Communications

DOI

2020

Murine interfollicular epidermal differentiation is gradualistic with GRHL3 controlling progression from stem to transition cell states

Zi-Guang Lin, Suo-Qin Jin, Jefferson K. Chen, Zhuo-Rui Li, Zhong-Qiu Lin, Li Tang, Qing Nie, B. Andersen

Nature Communications

DOI

2020

EMT-inhibiting transcription factor Ovol2 regulates directional cell migration and proliferation in adult skin epithelia

D. Haensel, Suo-Qin Jin, P. Sun, Rachel Cinco, M. Dragan, Quy Nguyen, Z. Cang, Yanwen Gong, R. Vu, Adam L. MacLean, K. Kessenbrock, E. Gratton, Qing Nie, X. Dai

2020

Circadian control of interferon-sensitive gene expression in murine skin

Elyse Greenberg, M. Marshall, Suo-Qin Jin, S. Venkatesh, M. Dragan, L. Tsoi, J. Gudjonsson, Qing Nie, J. Takahashi, Bogi Andersen

Proceedings of the National Academy of Sciences of the United States of America

DOI

2020

Robust Population Single Neuronal Calcium Signal Extraction Using SCOUT Allows for Longitudinal Analysis of Behavior-associated Neural Ensemble Dynamics

Kevin Johnston, S. Grieco, Zhaoxia Yu, Suo-Qin Jin, Tong Shen, Rachel Crary, J. F. Guzowski, Todd C. Holmes, Qing Nie, Xiang-Min Xu

bioRxiv

DOI

2019

Single-cell analysis reveals fibroblast heterogeneity and myeloid-derived adipocyte progenitors in murine skin wounds

C. Guerrero-Juarez, Priya H. Dedhia, Suo-Qin Jin, Rolando Ruiz-Vega, Dennis Ma, Yuchen Liu, Kosuke Yamaga, O. Shestova, D. Gay, Zai-Xin Yang, K. Kessenbrock, Qing Nie, W. Pear, G. Cotsarelis, M. Plikus

Nature Communications

DOI

2019

CA1-Projecting Subiculum Neurons Facilitate Object-Place Learning

Yan-Jun Sun, Suo-Qin Jin, Xiaoxiao Lin, Lujia Chen, X. Qiao, Li Jiang, Pengcheng Zhou, Kevin Johnston, P. Golshani, Qing Nie, Todd C. Holmes, D. Nitz, Xiang-Min Xu

Nature Neuroscience

DOI

2019

974 Single-cell analysis identifies heterogeneity of fibroblasts and myeloid-derived adipocytes in regenerating mouse skin wounds

C. Guerrero-Juarez, P. Dedhia, Suo-Qin Jin, Qing Nie, G. Cotsarelis, M. Plikus

Journal of Investigative Dermatology

DOI

2019

scRCMF: Identification of cell subpopulations and transition states from single cell transcriptomes

Xiao-Ying Zheng, Suo-Qin Jin, Qing Nie, Xiu-Fen Zou

IEEE Transactions on Biomedical Engineering

DOI

2019

Defining Epidermal Basal Cell States during Skin Homeostasis and Wound Healing Using Single-Cell Transcriptomics

D. Haensel, Suo-Qin Jin, P. Sun, Rachel Cinco, M. Dragan, Q. Nguyen, Z. Cang, Yanwen Gong, R. Vu, Adam L. MacLean, K. Kessenbrock, E. Gratton, Qing Nie, X. Dai

bioRxiv

DOI

2018

Trajectory Control in Nonlinear Networked Systems and Its Applications to Complex Biological Systems

Suo-Qin Jin, Ding-Jie Wang, Xiu-Fen Zou

SIAM Journal on Applied Mathematics

DOI

2018

scEpath: energy landscape-based inference of transition probabilities and cellular trajectories from single-cell transcriptomic data

Suo-Qin Jin, Adam L. MacLean, Tao Peng, Qing Nie

Bioinform.

DOI

2017

Domain control of nonlinear networked systems and applications to complex disease networks

Suo-Qin Jin, Fang-Xiang Wu, Xiu-Fen Zou

DOI

2016

Optimization of controllability and robustness of complex networks by edge directionality

Man Gui Liang, Suoqin Jin, Dingjie Wang, Xiufen Zou

The European Physical Journal B

DOI

2015

S1PR1介导细胞因子释放的信号通路的数学建模及其分析

邹秀芬，牛丽丽，金锁钦

《江西师范大学学报(自然科学版)》

2015

ESTIMATION OF CONTROL ENERGY AND CONTROL STRATEGIES FOR COMPLEX NETWORKS

Dingjie Wang, Suoqin Jin, Fang‐Xiang Wu, Xiufen Zou

Advances in Complex Systems

DOI

2015

Mathematical Modeling and Nonlinear Dynamical Analysis of Cell Growth in Response to Antibiotics

Suoqin Jin, Lili Niu, Gang Wang, Xiufen Zou

International Journal of Bifurcation and Chaos

DOI

2015

Crosstalk between pathways enhances the controllability of signalling networks

Dingjie Wang, Suoqin Jin, Xiufen Zou

IET Systems Biology

DOI

2015

Deciphering deterioration mechanisms of complex diseases based on the construction of dynamic networks and systems analysis

Yuanyuan Li, Suoqin Jin, Lei Lei, Zishu Pan, Xiufen Zou

Scientific Reports

DOI

2014

Characterizing and controlling the inflammatory network during influenza A virus infection

Suoqin Jin, Yuanyuan Li, Ruangang Pan, Xiufen Zou

Scientific Reports

DOI

2013

Construction of the influenza A virus infection-induced cell-specific inflammatory regulatory network based on mutual information and optimization

Suoqin Jin, Xiufen Zou

BMC Systems Biology

DOI

精选作品

期刊论文

Decoding and steering spatially resolved cellular dynamics

Identifying spatial single-cell-level interactions with graph transformer

MultiSP deciphers tissue structure and multicellular communication from spatial multi-omics data

Deciphering transcriptome complexity via long‐read sequencing

Integrating tumor–immune mechanistic modeling with transcriptomics reveals pattern-driven prognostic biomarkers in tumors

Adhesome-targeting shRNA modulates inferred cell fate trajectories and cell-cell communication during iPSC reprogramming

Cytochrome P450 1B1 directs pathogenic Th17 cell generation and autoimmune disease by fine-tuning redox homeostasis and mitochondrial integrity

Improving severity grading of chemotherapy-induced myelosuppression in AML via data-driven and model-based deep learning

Cell-Cell Communication Inference and Analysis: Biological Mechanisms, Computational Approaches, and Future Opportunities

Integrating multiscale mathematical modeling and multidimensional data reveals the effects of epigenetic instability on acquired drug resistance in cancer

PITCH: A Pathway-Induced Prioritization of Personalized Cancer Driver Genes Based on Higher-Order Interactions

Single-cell transcriptomics reveals aberrant skin-resident cell populations and identifies fibroblasts as a determinant in rosacea

CellChat for systematic analysis of cell–cell communication from single-cell transcriptomics

A novel multiscale framework for delineating cancer evolution from subclonal compositions

Signalling by senescent melanocytes hyperactivates hair growth

Single-cell transcriptomic analysis reveals diversity within mammalian spinal motor neurons

Network Evolution Model-based prediction of tumor mutation burden from radiomic-clinical features in endometrial cancers

Stable maternal proteins underlie distinct transcriptome, translatome, and proteome reprogramming during mouse oocyte-to-embryo transition

scAB detects multiresolution cell states with clinical significance by integrating single-cell genomics and bulk sequencing data

Wound healing in aged skin exhibits systems-level alterations in cellular composition and cell-cell communication

Computational exploration of cellular communication in skin from emerging single-cell and spatial transcriptomic data

Accurate prediction of glioma grades from radiomics using a multi-filter and multi-objective-based method

Multimodal analyses of vitiligo skin idenitfy tissue characteristics of stable disease

Identification of Intercellular Signaling Changes Across Conditions and Their Influence on Intracellular Signaling Response From Multiple Single-Cell Datasets

Single-cell transcriptomic analysis unveils spinal motor neuron subtype diversity underpinning the water-to-land transition in vertebrates

The landscape of cell-cell communication through single-cell transcriptomics

Tracking longitudinal population dynamics of single neuronal calcium signal using SCOUT

In-vivo optical microscopy and single cell transcriptomics approaches provide insights into therapeutic response of vitiligo

Multimodal Analyses of Stable Vitiligo Skin Identify Tissue Interactions That Control Disease Persistence

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

Inference and analysis of cell-cell communication using CellChat

Murine interfollicular epidermal differentiation is gradualistic with GRHL3 controlling progression from stem to transition cell states

EMT-inhibiting transcription factor Ovol2 regulates directional cell migration and proliferation in adult skin epithelia

Circadian control of interferon-sensitive gene expression in murine skin

Robust Population Single Neuronal Calcium Signal Extraction Using SCOUT Allows for Longitudinal Analysis of Behavior-associated Neural Ensemble Dynamics

Single-cell analysis reveals fibroblast heterogeneity and myeloid-derived adipocyte progenitors in murine skin wounds

CA1-Projecting Subiculum Neurons Facilitate Object-Place Learning

974 Single-cell analysis identifies heterogeneity of fibroblasts and myeloid-derived adipocytes in regenerating mouse skin wounds

scRCMF: Identification of cell subpopulations and transition states from single cell transcriptomes

Defining Epidermal Basal Cell States during Skin Homeostasis and Wound Healing Using Single-Cell Transcriptomics

Trajectory Control in Nonlinear Networked Systems and Its Applications to Complex Biological Systems

scEpath: energy landscape-based inference of transition probabilities and cellular trajectories from single-cell transcriptomic data

Domain control of nonlinear networked systems and applications to complex disease networks

Optimization of controllability and robustness of complex networks by edge directionality

S1PR1介导细胞因子释放的信号通路的数学建模及其分析

ESTIMATION OF CONTROL ENERGY AND CONTROL STRATEGIES FOR COMPLEX NETWORKS

Mathematical Modeling and Nonlinear Dynamical Analysis of Cell Growth in Response to Antibiotics

Crosstalk between pathways enhances the controllability of signalling networks

Deciphering deterioration mechanisms of complex diseases based on the construction of dynamic networks and systems analysis

Characterizing and controlling the inflammatory network during influenza A virus infection

Construction of the influenza A virus infection-induced cell-specific inflammatory regulatory network based on mutual information and optimization

预印本

Basophils drive the resolution and promote wound healing in adult and aged mice

研究方向