Discovering Recurrent Copy Number Aberrations in Complex Patterns via Non-Negative Sparse Singular Value Decomposition. - Jianing Xi; Ao Li 001 (IEEE ACM Trans. Comput. Biol. Bioinform., 2016)

Identification of driver network modules in protein-protein interaction network using patient mutation profiles. - Xiaocheng Liu; Jianing Xi; Changran Zhang; Huanqing Feng; Ao Li 001; Minghui Wang (CISP-BMEI, 2017)

DGPathinter: a novel model for identifying driver genes via knowledge-driven matrix factorization with prior knowledge from interactome and pathways. - Jianing Xi; Minghui Wang; Ao Li 001 (PeerJ Comput. Sci., 2017)

An efficient nonnegative matrix factorization model for finding cancer associated genes by integrating data from genome, transcriptome and interactome. - Jianing Xi; Ao Li 001; Minghui Wang (CISS, 2018)

Discovering mutated driver genes through a robust and sparse co-regularized matrix factorization framework with prior information from mRNA expression patterns and interaction network. - Jianing Xi; Minghui Wang; Ao Li 001 (BMC Bioinform., 2018)

A novel unsupervised learning model for detecting driver genes from pan-cancer data through matrix tri-factorization framework with pairwise similarities constraints. - Jianing Xi; Ao Li 001; Minghui Wang (Neurocomputing, 2018)

Inferring subgroup-specific driver genes from heterogeneous cancer samples via subspace learning with subgroup indication. - Jianing Xi; Xiguo Yuan; Minghui Wang; Ao Li 001; Xuelong Li 001; Qinghua Huang (Bioinform., 2020)

Driver Attribute Filling for Genes in Interaction Network via Modularity Subspace-Based Concept Learning from Small Samples. - Fei Xie; Jianing Xi; Qun Duan (Complex., 2020)

Dual-Layer Strengthened Collaborative Topic Regression Modeling for Predicting Drug Sensitivity. - Hang Wang; Jianing Xi; Minghui Wang; Ao Li 001 (IEEE ACM Trans. Comput. Biol. Bioinform., 2020)

HetRCNA: A Novel Method to Identify Recurrent Copy Number Alternations from Heterogeneous Tumor Samples Based on Matrix Decomposition Framework. - Jianing Xi; Ao Li 001; Minghui Wang (IEEE ACM Trans. Comput. Biol. Bioinform., 2020)

LPGNMF: Predicting Long Non-Coding RNA and Protein Interaction Using Graph Regularized Nonnegative Matrix Factorization. - Tianyi Zhang; Minghui Wang; Jianing Xi; Ao Li 001 (IEEE ACM Trans. Comput. Biol. Bioinform., 2020)

A Comparison Study of Direct Inference and Knowledge Compensating Generalized Inference as Multidisciplinary for Medical Knowledge Graph. - Jianing Xi; Zhaoji Miao; Qinghua Huang (CISP-BMEI, 2021)

Transductive Learning for BI-RADS Knowledge Graph based on Knowledge Tensor Factorization. - Jianing Xi; Zhaoji Miao; Qinghua Huang (CISP-BMEI, 2021)

Tolerating Data Missing in Breast Cancer Diagnosis from Clinical Ultrasound Reports via Knowledge Graph Inference. - Jianing Xi; Liping Ye; Qinghua Huang; Xuelong Li 001 (KDD, 2021)

A Local Outlier Factor-Based Detection of Copy Number Variations From NGS Data. - Xiguo Yuan; Junping Li; Jun Bai; Jianing Xi (IEEE ACM Trans. Comput. Biol. Bioinform., 2021)

STIC: Predicting Single Nucleotide Variants and Tumor Purity in Cancer Genome. - Xiguo Yuan; Chao Ma; Haiyong Zhao; Liying Yang 001; Shuzhen Wang; Jianing Xi (IEEE ACM Trans. Comput. Biol. Bioinform., 2021)

CNV_IFTV: An Isolation Forest and Total Variation-Based Detection of CNVs from Short-Read Sequencing Data. - Xiguo Yuan; Jiaao Yu; Jianing Xi; Liying Yang 001; Junliang Shang; Zhe Li; Junbo Duan (IEEE ACM Trans. Comput. Biol. Bioinform., 2021)

A parametric model for clustering single-cell mutation data. - Jiaqian Yan; Jianing Xi; Zhenhua Yu 002 (BIBM, 2022)

Knowledge tensor embedding framework with association enhancement for breast ultrasound diagnosis of limited labeled samples. - Jianing Xi; Zhaoji Miao; Longzhong Liu; Xuebing Yang; Wensheng Zhang 002; Qinghua Huang; Xuelong Li 001 (Neurocomputing, 2022)

Structure-aware siamese graph neural networks for encounter-level patient similarity learning. - Yifan Gu; Xuebing Yang; Lei Tian 007; Hongyu Yang; Jicheng Lv; Chao Yang; Jinwei Wang; Jianing Xi; Guilan Kong; Wensheng Zhang 002 (J. Biomed. Informatics, 2022)

LUR: An Online Learning Model for EEG Emotion Recognition. - Gang Cao; Liying Yang 001; Qian Zhang 074; Jianing Xi; Chengchuang Tang; Yang Tian (BIBM, 2023)

Pathological Tissue-level Contour Genomic Profile Interpretation of Lung Adenocarcinoma via Spatial and Morphological Features Co-action Graph Neural Network. - Yu Yu; Wen Shi; Guoxi Xie; Jianing Xi (BIBM, 2023)

Cancer omic data based explainable AI drug recommendation inference: A traceability perspective for explainability. - Jianing Xi; Dan Wang; Xuebing Yang; Wensheng Zhang 002; Qinghua Huang (Biomed. Signal Process. Control., 2023)

An omics-to-omics joint knowledge association subtensor model for radiogenomics cross-modal modules from genomics and ultrasonic images of breast cancers. - Jianing Xi; Donghui Sun; Cai Chang; Shichong Zhou; Qinghua Huang (Comput. Biol. Medicine, 2023)

Channel transformer based multi field-of-view model to detect tumor spread through air space in histopathological images. - Haotian Gong; Jianing Xi; Cong Li; Hailong Zhang; Sisi Chen; Shuanlong Che; Ling Qi; Guiying Zhang (Expert Syst. Appl., 2025)

Asynchronous storming-norming ant colony system for project scheduling under scenario perturbation of activity attributes. - Wen Shi; Feng-Feng Wei; Xiaolin Bo; Zhisheng Bi; Jianing Xi; Wei-Neng Chen (Swarm Evol. Comput., 2025)

Cortical Activation Patterns Determine Effectiveness of rTMS-Induced Motor Imagery Decoding Enhancement in Stroke Patients. - Tianyu Jia; Linhong Mo; Ciarán McGeady; Jingyao Sun; Aixian Liu; Linhong Ji; Jianing Xi; Chong Li 004 (IEEE Trans. Biomed. Eng., 2025)