Continuously tracing brain-wide long-distance axonal projections in mice at a one-micron voxel resolution. - Hui Gong; Shaoqun Zeng; Cheng Yan; Xiaohua Lv; Zhongqin Yang; Tonghui Xu; Zhao Feng; Wenxiang Ding; Xiaoli Qi; Anan Li; Jingpeng Wu; Qingming Luo (NeuroImage, 2013)

Complex relationship between BOLD-fMRI and electrophysiological signals in different olfactory bulb layers. - Bo Li; Ling Gong; Ruiqi Wu; Anan Li; Fuqiang Xu (NeuroImage, 2014)

3D BrainCV: Simultaneous visualization and analysis of cells and capillaries in a whole mouse brain with one-micron voxel resolution. - Jingpeng Wu; Yong He 002; Zhongqin Yang; Congdi Guo; Qingming Luo; Wei Zhou; Shangbin Chen; Anan Li; Benyi Xiong; Tao Jiang; Hui Gong (NeuroImage, 2014)

An Automatic Method for Nucleus Boundary Segmentation Based on a Closed Cubic Spline. - Zhao Feng; Anan Li; Hui Gong; Qingming Luo (Frontiers Neuroinformatics, 2016)

SparseTracer: the Reconstruction of Discontinuous Neuronal Morphology in Noisy Images. - Shiwei Li; Hang Zhou; Tingwei Quan; Jing Li; Yuxin Li; Anan Li; Qingming Luo; Hui Gong; Shaoqun Zeng (Neuroinformatics, 2017)

Challenges of Processing and Analyzing Big Data in Mesoscopic Whole-brain Imaging. - Anan Li; Yue Guan 001; Hui Gong; Qingming Luo (Genom. Proteom. Bioinform., 2019)

Identifying Weak Signals in Inhomogeneous Neuronal Images for Large-Scale Tracing of Sparsely Distributed Neurites. - Shiwei Li; Tingwei Quan; Hang Zhou; Fangfang Yin; Anan Li; Ling Fu; Qingming Luo; Hui Gong; Shaoqun Zeng (Neuroinformatics, 2019)

Skeleton optimization of neuronal morphology based on three-dimensional shape restrictions. - Siqi Jiang; Zhengyu Pan; Zhao Feng; Yue Guan 001; Miao Ren; Zhangheng Ding; Shangbin Chen; Hui Gong; Qingming Luo; Anan Li (BMC Bioinform., 2020)

webTDat: A Web-Based, Real-Time, 3D Visualization Framework for Mesoscopic Whole-Brain Images. - Yuxin Li; Anan Li; Junhuai Li; Hongfang Zhou; Ting Cao; Huaijun Wang; Kan Wang (Frontiers Neuroinformatics, 2020)

Brain-Wide Shape Reconstruction of a Traced Neuron Using the Convex Image Segmentation Method. - Shiwei Li; Tingwei Quan; Hang Zhou; Qing Huang; Tao Guan; Yijun Chen; Cheng Xu; Hongtao Kang; Anan Li; Ling Fu; Qingming Luo; Hui Gong; et al. (Neuroinformatics, 2020)

Automated Brain Region Segmentation for Single Cell Resolution Histological Images Based on Markov Random Field. - Xiaofeng Xu; Yue Guan 001; Hui Gong; Zhao Feng; Wenjuan Shi; Anan Li; Miao Ren; Jing Yuan 007; Qingming Luo (Neuroinformatics, 2020)

Denoising Across Data Acquisition Modalities for Mesoscopic Scale Optical Neuroimaging. - Tianfang Zhu; Yutong Han; Anan Li; Jing Yuan 007; Hui Gong; Yue Guan 001 (IEEE Access, 2021)

PointManifoldCut: Point-wise Augmentation in the Manifold for Point Clouds. - Tianfang Zhu; Yue Guan 001; Anan Li (CoRR, 2021)

Joint Optical Neuroimaging Denoising with Semantic Tasks. - Tianfang Zhu; Yue Guan 001; Anan Li (CoRR, 2021)

DeepMapi: a Fully Automatic Registration Method for Mesoscopic Optical Brain Images Using Convolutional Neural Networks. - Hong Ni; Zhao Feng; Yue Guan 001; Xueyan Jia; Wu Chen; Tao Jiang; Qiuyuan Zhong; Jing Yuan 007; Miao Ren; Xiangning Li; Hui Gong; Qingming Luo; et al. (Neuroinformatics, 2021)

GTree: an Open-source Tool for Dense Reconstruction of Brain-wide Neuronal Population. - Hang Zhou; Shiwei Li; Anan Li; Qing Huang; Feng Xiong; Ning Li; Jiacheng Han; Hongtao Kang; Yijun Chen; Yun Li; Huimin Lin; Yu-Hui Zhang; et al. (Neuroinformatics, 2021)

VBNet: An end-to-end 3D neural network for vessel bifurcation point detection in mesoscopic brain images. - Yuxin Li; Tong Ren; Junhuai Li; Huaijun Wang; Xiangning Li; Anan Li (Comput. Methods Programs Biomed., 2022)

Deep learning-based large-scale named entity recognition for anatomical region of mammalian brain. - Xiaokang Chai; Yachao Di; Zhao Feng; Yue Guan 001; Guoqing Zhang 006; Anan Li; Qingming Luo (Quant. Biol., 2022)

Minimizing Probability Graph Connectivity Cost for Discontinuous Filamentary Structures Tracing in Neuron Image. - Qing Huang; Tingting Cao; Shaoqun Zeng; Anan Li; Tingwei Quan (IEEE J. Biomed. Health Informatics, 2022)

An interactive image segmentation method for the anatomical structures of the main olfactory bulb with micro-level resolution. - Xin Liu; Anan Li; Yue Luo; Shengda Bao; Tao Jiang; Xiangning Li; Jing Yuan 007; Zhao Feng (Frontiers Neuroinformatics, 2023)

A high-performance deep-learning-based pipeline for whole-brain vasculature segmentation at the capillary resolution. - Yuxin Li; Xuhua Liu; Xueyan Jia; Tao Jiang; Jianghao Wu 005; Qianlong Zhang; Junhuai Li; Xiangning Li; Anan Li (Bioinform., 2023)

SMDB: a Spatial Multimodal Data Browser. - Ruifang Cao; Yunchao Ling; Jiayue Meng; Ao Jiang; Ruijin Luo; Qinwen He; Anan Li; Yujie Chen; Zoutao Zhang; Feng Liu; Yixue Li; Guoqing Zhang 006 (Nucleic Acids Res., 2023)

Data-Driven Morphological Feature Perception of Single Neuron With Graph Neural Network. - Tianfang Zhu; Gang Yao; Dongli Hu; Chuangchuang Xie; Pengcheng Li 003; Xiaoquan Yang; Hui Gong; Qingming Luo; Anan Li (IEEE Trans. Medical Imaging, 2023)

Cross comparison representation learning for semi-supervised segmentation of cellular nuclei in immunofluorescence staining. - Jianran Ren; Jingyi Che; Peicong Gong; Xiaojun Wang; Xiangning Li; Anan Li; Chi Xiao (Comput. Biol. Medicine, 2024)

Graph-based cell pattern recognition for merging the multi-modal optical microscopic image of neurons. - Wenwei Li; Wu Chen; Zimin Dai; Xiaokang Chai; Sile An; Zhuang Guan; Wei Zhou; Jianwei Chen; Hui Gong; Qingming Luo; Zhao Feng; Anan Li (Comput. Methods Programs Biomed., 2024)

A hierarchically annotated dataset drives tangled filament recognition in digital neuron reconstruction. - Wu Chen; Mingwei Liao; Shengda Bao; Sile An; Wenwei Li; Xin Liu; Ganghua Huang; Hui Gong; Qingming Luo; Chi Xiao; Anan Li (Patterns, 2024)

High-throughput mesoscopic optical imaging data processing and parsing using differential-guided filtered neural networks. - Hong Zhang; Zhikang Lu; Peicong Gong; Shilong Zhang; Xiaoquan Yang; Xiangning Li; Zhao Feng; Anan Li; Chi Xiao (Brain Informatics, 2024)

Biologically Constrained Barrel Cortex Model Integrates Whisker Inputs and Replicates Key Brain Network Dynamics. - Tianfang Zhu; Dongli Hu; Jiandong Zhou 002; Kai Du; Anan Li (ICLR, 2025)

Deep leaning-based interactive segmentation of three-dimensional blood vessel images. - Yuxin Li; Qianlong Zhang; Hang Zhou; Yang An; Junhuai Li; Xiangning Li; Hongfang Zhou; Anan Li (Biomed. Signal Process. Control., 2025)

A Few-Shot Metric Learning Method with Dual-Channel Attention for Cross-Modal Same-Neuron Identification. - Wenwei Li; Liyi Cai; Wu Chen; Anan Li (CoRR, 2025)

SlicesMapi: An Interactive Three-Dimensional Registration Method for Serial Histological Brain Slices. - Zoutao Zhang; Lingyi Cai; Wenwei Li; Hui Gong; Anan Li; Zhao Feng (Neuroinformatics, 2025)

Convergent and divergent connectivity patterns of the arcuate fasciculus in macaques and humans. - Jiahao Huang; Ruifeng Li; Wenwen Yu; Anan Li; Xiangning Li; Mingchao Yan; Lei Xie 001; Qingrun Zeng; Xueyan Jia; Shuxin Wang; Ronghui Ju; Feng Chen; et al. (CoRR, 2025)