Publications by authors named "Zhixiang Lin"

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A unified framework for identification of cell-type-specific spatially variable genes in spatial transcriptomic studies.
Zhiwei Wang, Yeqin Zeng, Ziyue Tan, Yuheng Chen, Xinrui Huang, Zhixiang Lin

Proc Natl Acad Sci U S A· November 2025

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STIFT: spatiotemporal transcriptomics integration through spatially informed multi-timepoint bridging.
Ji Qi, Muyang Ge, Jishuai Miao, Xiaocheng Zhou, Zhixiang Lin

Brief Bioinform· November 2025

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InterVelo: a mutually enhancing model for estimating pseudotime and RNA velocity in multi-omic single-cell data.
Yurou Wang, Zhixiang Lin, Tao Wang

Bioinformatics· October 2025

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MultiGATE: integrative analysis and regulatory inference in spatial multi-omics data via graph representation learning.
Jishuai Miao, Jinzhao Li, Jingxue Xin, Jiajuan Tu, Muyang Ge, Zhixiang Lin

Nat Commun· October 2025

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Interpretable spatial multi-omics data integration and dimension reduction with SpaMV.
Yang Liu, Kexin Ma, Haoran Xu, Ke Xu, Yunfei Hu, Zhenhan Lin, Jiangli Lin, Zhixiang Lin

Res Sq· September 2025

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TIVelo: RNA velocity estimation leveraging cluster-level trajectory inference.
Muyang Ge, Jishuai Miao, Ji Qi, Xiaocheng Zhou, Zhixiang Lin

Nat Commun· July 2025

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Protective Role of Quercetin in Chronic Atrophic Gastritis: Modulation of Gastric Mucosal Integrity via the Transforming Growth Factor-beta1/Smads Signaling Pathway.
Peipei Cai, Qingqing Song, Fangpeng Ye, Rongjian Chen, Zhixiang Lin

Discov Med· June 2025

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Arachidonic acid in aging: New roles for old players.
Chen Qian, Qing Wang, Yusen Qiao, Ze Xu, Linlin Zhang, Zhixiang Lin, Huilin Yang

J Adv Res· April 2025

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Precise gene expression deconvolution in spatial transcriptomics with STged.
Jia-Juan Tu, Hong Yan, Xiao-Fei Zhang, Zhixiang Lin

Nucleic Acids Res· February 2025

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Publisher Correction: scParser: sparse representation learning for scalable single-cell RNA sequencing data analysis.
Kai Zhao, Hon-Cheong So, Zhixiang Lin

Genome Biol· September 2024

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Regulation of bone homeostasis: signaling pathways and therapeutic targets.
Zebin Wu, Wenming Li, Kunlong Jiang, Zhixiang Lin, Chen Qian

MedComm (2020)· August 2024

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scParser: sparse representation learning for scalable single-cell RNA sequencing data analysis.
Kai Zhao, Hon-Cheong So, Zhixiang Lin

Genome Biol· August 2024

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Crosstalk between Lipid Metabolism and Bone Homeostasis: Exploring Intricate Signaling Relationships.
Haixiang Xiao, Wenming Li, Yi Qin, Zhixiang Lin, Chen Qian

Research (Wash D C)· August 2024

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ABCD1 as a Novel Diagnostic Marker for Solid Pseudopapillary Neoplasm of the Pancreas.
Ying-Ao Liu, Yuanhao Liu, Jiajuan Tu, Yihong Shi, Junyi Pang, Zhixiang Lin

Am J Surg Pathol· May 2024

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INSIDER: Interpretable sparse matrix decomposition for RNA expression data analysis.
Kai Zhao, Sen Huang, Cuichan Lin, Pak Chung Sham, Hon-Cheong So, Zhixiang Lin

PLoS Genet· March 2024

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scICML: Information-Theoretic Co-Clustering-Based Multi-View Learning for the Integrative Analysis of Single-Cell Multi-Omics Data.
Pengcheng Zeng, Zhixiang Lin

IEEE/ACM Trans Comput Biol Bioinform· February 2024

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Therapeutic Potential of Adipose-Derived Stem Cell-Conditioned Medium and Extracellular Vesicles in an In Vitro Radiation-Induced Skin Injury Model.
Zhixiang Lin, Yoichiro Shibuya, Yukiko Imai, Junya Oshima, Masahiro Sasaki

Int J Mol Sci· December 2023

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Integrating spatial and single-cell transcriptomics data using deep generative models with SpatialScope.
Xiaomeng Wan, Jiashun Xiao, Sindy Sing Ting Tam, Mingxuan Cai, Ryohichi Sugimura, Zhixiang Lin

Nat Commun· November 2023

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SGCAST: symmetric graph convolutional auto-encoder for scalable and accurate study of spatial transcriptomics.
Jinzhao Li, Jiong Wang, Zhixiang Lin

Brief Bioinform· November 2023

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stVAE deconvolves cell-type composition in large-scale cellular resolution spatial transcriptomics.
Chen Li, Ting-Fung Chan, Can Yang, Zhixiang Lin

Bioinformatics· October 2023

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iPoLNG-An unsupervised model for the integrative analysis of single-cell multiomics data.
Wenyu Zhang, Zhixiang Lin

Front Genet· February 2023

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scAWMV: an adaptively weighted multi-view learning framework for the integrative analysis of parallel scRNA-seq and scATAC-seq data.
Pengcheng Zeng, Yuanyuan Ma, Zhixiang Lin

Bioinformatics· January 2023

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RefTM: reference-guided topic modeling of single-cell chromatin accessibility data.
Zheng Zhang, Shengquan Chen, Zhixiang Lin

Brief Bioinform· January 2023

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FIRM: Flexible integration of single-cell RNA-sequencing data for large-scale multi-tissue cell atlas datasets.
Jingsi Ming, Zhixiang Lin, Jia Zhao, Xiang Wan,

Brief Bioinform· September 2022

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Mendelian randomization for causal inference accounting for pleiotropy and sample structure using genome-wide summary statistics.
Xianghong Hu, Jia Zhao, Zhixiang Lin, Yang Wang, Heng Peng

Proc Natl Acad Sci U S A· July 2022

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