MiCroKit 3.0: an integrated database of midbody, centrosome and kinetochore. - Jian Ren 002; Zexian Liu; Xinjiao Gao; Changjiang Jin; Mingliang Ye; Hanfa Zou; Longping Wen; Zhaolei Zhang; Yu Xue 001; Xuebiao Yao (Nucleic Acids Res., 2010)

CPLA 1.0: an integrated database of protein lysine acetylation. - Zexian Liu; Jun Cao; Xinjiao Gao; Yanhong Zhou; Longping Wen; Xiangjiao Yang; Xuebiao Yao; Jian Ren 002; Yu Xue 001 (Nucleic Acids Res., 2011)

Systematic analysis of the Plk-mediated phosphoregulation in eukaryotes. - Zexian Liu; Jian Ren 002; Jun Cao; Jiang He; Xuebiao Yao; Changjiang Jin; Yu Xue 001 (Briefings Bioinform., 2013)

UUCD: a family-based database of ubiquitin and ubiquitin-like conjugation. - Tianshun Gao; Zexian Liu; Yongbo Wang; Han Cheng; Qing Yang; Anyuan Guo; Jian Ren 002; Yu Xue 001 (Nucleic Acids Res., 2013)

dbPPT: a comprehensive database of protein phosphorylation in plants. - Han Cheng; Wankun Deng; Yongbo Wang; Jian Ren 002; Zexian Liu; Yu Xue 001 (Database J. Biol. Databases Curation, 2014)

CPLM: a database of protein lysine modifications. - Zexian Liu; Yongbo Wang; Tianshun Gao; Zhicheng Pan; Han Cheng; Qing Yang; Zhongyi Cheng; Anyuan Guo; Jian Ren 002; Yu Xue 001 (Nucleic Acids Res., 2014)

EKPD: a hierarchical database of eukaryotic protein kinases and protein phosphatases. - Yongbo Wang; Zexian Liu; Han Cheng; Tianshun Gao; Zhicheng Pan; Qing Yang; Anyuan Guo; Yu Xue 001 (Nucleic Acids Res., 2014)

GPS-SUMO: a tool for the prediction of sumoylation sites and SUMO-interaction motifs. - Qi Zhao; Yubin Xie; Yueyuan Zheng; Shuai Jiang; Wenzhong Liu; Weiping Mu; Zexian Liu; Yong Zhao 013; Yu Xue 001; Jian Ren 002 (Nucleic Acids Res., 2014)

dbPSP: a curated database for protein phosphorylation sites in prokaryotes. - Zhicheng Pan; Bangshan Wang; Ying Zhang 052; Yongbo Wang; Shahid Ullah; Jian Ren 002; Zexian Liu; Yu Xue 001 (Database J. Biol. Databases Curation, 2015)

MiCroKiTS 4.0: a database of midbody, centrosome, kinetochore, telomere and spindle. - Zhengnan Huang; Lili Ma; Yongbo Wang; Zhicheng Pan; Jian Ren 002; Zexian Liu; Yu Xue 001 (Nucleic Acids Res., 2015)

Several efficient gradient methods with approximate optimal stepsizes for large scale unconstrained optimization. - Zexian Liu; Hongwei Liu 001 (J. Comput. Appl. Math., 2018)

A new subspace minimization conjugate gradient method with nonmonotone line search for unconstrained optimization. - Ming Li 004; Hongwei Liu 001; Zexian Liu (Numer. Algorithms, 2018)

An efficient gradient method with approximate optimal stepsize for large-scale unconstrained optimization. - Zexian Liu; Hongwei Liu 001 (Numer. Algorithms, 2018)

A new adaptive Barzilai and Borwein method for unconstrained optimization. - Hongwei Liu 001; Zexian Liu; Xiaoliang Dong (Optim. Lett., 2018)

A subspace minimization conjugate gradient method based on conic model for unconstrained optimization. - Yufei Li; Zexian Liu; Hongwei Liu 001 (Comput. Appl. Math., 2019)

Accelerated augmented Lagrangian method for total variation minimization. - Zexian Liu; Hongwei Liu 001; Xiping Wang (Comput. Appl. Math., 2019)

A new subspace minimization conjugate gradient method based on tensor model for unconstrained optimization. - Ting Wang; Zexian Liu; Hongwei Liu 001 (Int. J. Comput. Math., 2019)

An Efficient Barzilai-Borwein Conjugate Gradient Method for Unconstrained Optimization. - Hongwei Liu 001; Zexian Liu (J. Optim. Theory Appl., 2019)

An Efficient Gradient Method with Approximately Optimal Stepsize Based on Tensor Model for Unconstrained Optimization. - Zexian Liu; Hongwei Liu 001 (J. Optim. Theory Appl., 2019)

qPhos: a database of protein phosphorylation dynamics in humans. - Kai Yu 011; Qingfeng Zhang; Zekun Liu; Qi Zhao; Xiaolong Zhang; Yan Wang; Zi-Xian Wang; Ying Jin; Xiaoxing Li; Zexian Liu; Rui-Hua Xu (Nucleic Acids Res., 2019)

An efficient adaptive three-term extension of the Hestenes-Stiefel conjugate gradient method. - Xiao-Liang Dong; Zexian Liu; Hong-Wei Liu 001; Xiang-Li Li (Optim. Methods Softw., 2019)

Deep learning based prediction of reversible HAT/HDAC-specific lysine acetylation. - Kai Yu 011; Qingfeng Zhang; Zekun Liu; Yimeng Du; Xinjiao Gao; Qi Zhao; Han Cheng; Xiaoxing Li; Zexian Liu (Briefings Bioinform., 2020)

CrossICC: iterative consensus clustering of cross-platform gene expression data without adjusting batch effect. - Qi Zhao; Yu Sun; Zekun Liu; Hongwan Zhang; Xingyang Li; Kaiyu Zhu; Zexian Liu; Jian Ren 002; Zhixiang Zuo (Briefings Bioinform., 2020)

A new subspace minimization conjugate gradient method based on modified secant equation for unconstrained optimization. - Xinliu Diao; Hongwei Liu 001; Zexian Liu (Comput. Appl. Math., 2020)

An improved Dai-Kou conjugate gradient algorithm for unconstrained optimization. - Zexian Liu; Hongwei Liu 001; Yu-Hong Dai (Comput. Optim. Appl., 2020)

Ubiquitinome Profiling Reveals the Landscape of Ubiquitination Regulation in Rice Young Panicles. - Liya Zhu; Han Cheng; Guoqing Peng; Shuansuo Wang; Zhiguo Zhang; Erdong Ni; Xiangdong Fu; Chuxiong Zhuang; Zexian Liu; Hai Zhou (Genom. Proteom. Bioinform., 2020)

iCysMod: an integrative database for protein cysteine modifications in eukaryotes. - Panqin Wang; Qingfeng Zhang; Shihua Li; Ben Cheng; Han Xue; Zhen Wei; Tian Shao; Zexian Liu; Han Cheng; Zhenlong Wang (Briefings Bioinform., 2021)

gutMEGA: a database of the human gut MEtaGenome Atlas. - Qingfeng Zhang; Kai Yu 011; Shihua Li; Xiaolong Zhang; Qi Zhao; Xia Zhao; Zekun Liu; Han Cheng; Zexian Liu; Xiaoxing Li (Briefings Bioinform., 2021)

iCAV: an integrative database of cancer-associated viruses. - Bo Liu; Qingfeng Zhang; Jingou Wang; Shumin Cao; Zhiyuan Zhou; Zexian Liu; Han Cheng (Database J. Biol. Databases Curation, 2021)

A Class of Accelerated Subspace Minimization Conjugate Gradient Methods. - Wumei Sun; Hongwei Liu 001; Zexian Liu (J. Optim. Theory Appl., 2021)

New subspace minimization conjugate gradient methods based on regularization model for unconstrained optimization. - Ting Zhao; Hongwei Liu 001; Zexian Liu (Numer. Algorithms, 2021)

Multi-modal optimization to identify personalized biomarkers for disease prediction of individual patients with cancer. - Jing J. Liang; Zong-Wei Li; Cai-Tong Yue; Zhuo Hu; Han Cheng; Zexian Liu; Weifeng Guo (Briefings Bioinform., 2022)

Some modified fast iterative shrinkage thresholding algorithms with a new adaptive non-monotone stepsize strategy for nonsmooth and convex minimization problems. - Hongwei Liu 001; Ting Wang; Zexian Liu (Comput. Optim. Appl., 2022)

Several accelerated subspace minimization conjugate gradient methods based on regularization model and convergence rate analysis for nonconvex problems. - Wumei Sun; Hongwei Liu 001; Zexian Liu (Numer. Algorithms, 2022)

qPTMplants: an integrative database of quantitative post-translational modifications in plants. - Han Xue; Qingfeng Zhang; Panqin Wang; Bijin Cao; Chongchong Jia; Ben Cheng; Yuhua Shi; Weifeng Guo; Zhenlong Wang; Zexian Liu; Han Cheng (Nucleic Acids Res., 2022)

An efficient gradient method with approximately optimal stepsizes based on regularization models for unconstrained optimization. - Zexian Liu; Wangli Chu; Hongwei Liu (RAIRO Oper. Res., 2022)

dSCOPE: a software to detect sequences critical for liquid-liquid phase separation. - Kai Yu 011; Zekun Liu; Haoyang Cheng; Shihua Li; Qingfeng Zhang; Jia Liu; Huai-Qiang Ju; Zhixiang Zuo; Qi Zhao; Shiyang Kang; Zexian Liu (Briefings Bioinform., 2023)

qPTM: an updated database for PTM dynamics in human, mouse, rat and yeast. - Kai Yu 011; Ye Wang; Yongqiang Zheng; Zekun Liu; Qingfeng Zhang; Siyu Wang; Qi Zhao; Xiaolong Zhang; Xiaoxing Li; Rui-Hua Xu; Zexian Liu (Nucleic Acids Res., 2023)

iHypoxia: An Integrative Database of Protein Expression Dynamics in Response to Hypoxia in Animals. - Zexian Liu; Panqin Wang; Qingfeng Zhang; Shihua Li; Yuxin Zhang; Yutong Guo; Chongchong Jia; Tian Shao; Lin Li; Han Cheng; Zhenlong Wang (Genom. Proteom. Bioinform., 2023)

A regularized limited memory subspace minimization conjugate gradient method for unconstrained optimization. - Wumei Sun; Hongwei Liu 001; Zexian Liu (Numer. Algorithms, 2023)

An efficient inertial subspace minimization CG algorithm with convergence rate analysis for constrained nonlinear monotone equations. - Taiyong Song; Zexian Liu (J. Comput. Appl. Math., 2024)

A New Subspace Minimization Conjugate Gradient Method for Unconstrained Minimization. - Zexian Liu; Yan Ni; Hongwei Liu 001; Wumei Sun (J. Optim. Theory Appl., 2024)

An Efficient Subspace Minimization Conjugate Gradient Method for Solving Nonlinear Monotone Equations with Convex Constraints. - Taiyong Song; Zexian Liu (Axioms, 2024)

A nonmonotone accelerated proximal gradient method with variable stepsize strategy for nonsmooth and nonconvex minimization problems. - Hongwei Liu 001; Ting Wang; Zexian Liu (J. Glob. Optim., 2024)

3D Dental Model Segmentation with Geometrical Boundary Preserving. - Shufan Xi; Zexian Liu; Junlin Chang; Hongyu Wu; Xiaogang Wang; Aimin Hao (CVPR, 2025)

A limited memory subspace minimization conjugate gradient algorithm for unconstrained optimization. - Zexian Liu; Yu-Hong Dai; Hongwei Liu 001 (Optim. Lett., 2025)