A Novel Feature Ensemble Technology to Improve Prediction Performance of Multiple Heterogeneous Phenotypes Based on Microarray Data. - Haiyun Wang; Qingpu Zhang; Yadong Wang 001; Xia Li 004; Shaoqi Rao; Zuquan Ding (FSKD (2), 2005)

Constructing disease-specific gene networks using pair-wise relevance metric: Application to colon cancer identifies interleukin 8, desmin and enolase 1 as the central elements. - Wei Jiang 023; Xia Li 004; Shaoqi Rao; Lihong Wang; Lei Du 002; Chuanxing Li; Chao Wu; Hongzhi Wang 001; Yadong Wang 001; Baofeng Yang (BMC Syst. Biol., 2008)

Global Similarity and Local Variance in Human Gene Coexpression Networks. - Ivan Krivosheev; Lei Du 002; Hongzhi Wang 001; Shaojun Zhang; Yadong Wang 001; Xia Li 004 (AICI, 2009)

miR2Disease: a manually curated database for microRNA deregulation in human disease. - Qinghua Jiang; Yadong Wang 001; Yangyang Hao; Liran Juan; Mingxiang Teng; Xinjun Zhang; Meimei Li; Guohua Wang; Yunlong Liu (Nucleic Acids Res., 2009)

Alignment results of SOBOM for OAEI 2010. - Peigang Xu; Yadong Wang 001; Liang Cheng 006; Tianyi Zang (OM, 2010)

Prioritization of disease microRNAs through a human phenome-microRNAome network. - Qinghua Jiang; Yangyang Hao; Guohua Wang; Liran Juan; Tianjiao Zhang; Mingxiang Teng; Yunlong Liu; Yadong Wang 001 (BMC Syst. Biol., 2010)

Empirical bayes model comparisons for differential methylation analysis. - Mingxiang Teng; Yadong Wang 001; Yunlong Liu; Seongho Kim; Curtis Balch; Kenneth P. Nephew; Lang Li 001 (GENSiPS, 2011)

A modulated empirical Bayes model for identifying topological and temporal estrogen receptor α regulatory networks in breast cancer. - Changyu Shen; Yi-Wen Huang; Yunlong Liu; Guohua Wang; Yuming Zhao; Zhiping Wang; Mingxiang Teng; Yadong Wang 001; David A. Flockhart; Todd C. Skaar; Pearlly Yan; Kenneth P. Nephew; et al. (BMC Syst. Biol., 2011)

PRISM: Pair-read informed split-read mapping for base-pair level detection of insertion, deletion and structural variants. - Yue Jiang; Yadong Wang 001; Michael Brudno (Bioinform., 2012)

regSNPs: a strategy for prioritizing regulatory single nucleotide substitutions. - Mingxiang Teng; Shoji Ichikawa; Leah R. Padgett; Yadong Wang 001; Matthew E. Mort; David N. Cooper; Daniel L. Koller; Tatiana Foroud; Howard J. Edenberg; Michael J. Econs; Yunlong Liu (Bioinform., 2012)

A differentor-based adaptive ontology-matching approach. - Peigang Xu; Yadong Wang 001; Bo Liu 023 (J. Inf. Sci., 2012)

PERGA: A Paired-End Read Guided De Novo Assembler for Extending Contigs Using SVM Approach. - Xiao Zhu; Henry C. M. Leung; Francis Y. L. Chin; Siu-Ming Yiu; Guangri Quan; Bo Liu 023; Yadong Wang 001 (BCB, 2013)

Identifying cross-category relations in gene ontology and constructing genome-specific term association networks. - Jiajie Peng; Jin Chen 004; Yadong Wang 001 (BMC Bioinform., 2013)

A gradient-boosting approach for filtering de novo mutations in parent-offspring trios. - Yongzhuang Liu; Bingshan Li; Renjie Tan; Xiaolin Zhu 002; Yadong Wang 001 (Bioinform., 2014)

Towards integrative gene functional similarity measurement. - Jiajie Peng; Yadong Wang 001; Jin Chen 004 (BMC Bioinform., 2014)

An integrative approach for measuring semantic similarities using gene ontology. - Jiajie Peng; Hongxiang Li; Qinghua Jiang; Yadong Wang 001; Jin Chen 004 (BMC Syst. Biol., 2014)

The personal genome browser: visualizing functions of genetic variants. - Liran Juan; Mingxiang Teng; Tianyi Zang; Yafeng Hao; Zhenxing Wang; Chengwu Yan; Yongzhuang Liu; Jie Li 055; Tianjiao Zhang; Yadong Wang 001 (Nucleic Acids Res., 2014)

A web tool for measuring gene semantic similarities by combining gene ontology and gene co-function networks. - Jiajie Peng; Hongxiang Li; Yadong Wang 001; Jin Chen 004 (BCB, 2015)

Family genome browser: visualizing genomes with pedigree information. - Liran Juan; Yongzhuang Liu; Yongtian Wang; Mingxiang Teng; Tianyi Zang; Yadong Wang 001 (Bioinform., 2015)

Measuring semantic similarities by combining gene ontology annotations and gene co-function networks. - Jiajie Peng; Sahra Uygun; Taehyong Kim; Yadong Wang 001; Seung Y. Rhee; Jin Chen 004 (BMC Bioinform., 2015)

Improving multiple sequence alignment by using better guide trees. - Qing Zhan; Yongtao Ye; Tak Wah Lam; Siu-Ming Yiu; Yadong Wang 001; Hing-Fung Ting (BMC Bioinform., 2015)

misFinder: identify mis-assemblies in an unbiased manner using reference and paired-end reads. - Xiao Zhu; Henry C. M. Leung; Rongjie Wang; Francis Y. L. Chin; Siu-Ming Yiu; Guangri Quan; Yajie Li; Rui Zhang; Qinghua Jiang; Bo Liu 023; Yucui Dong; Guohui Zhou; et al. (BMC Bioinform., 2015)

LncRNA2Target: a database for differentially expressed genes after lncRNA knockdown or overexpression. - Qinghua Jiang; Jixuan Wang; Xiaoliang Wu; Rui Ma; Tianjiao Zhang; Shuilin Jin; Zhijie Han 002; Renjie Tan; Jiajie Peng; Guiyou Liu; Yu Li; Yadong Wang 001 (Nucleic Acids Res., 2015)

Using Semantic Association to Extend and Infer Literature-Oriented Relativity Between Terms. - Liang Cheng 006; Jie Li 055; Yang Hu 008; Yue Jiang; Yongzhuang Liu; Yan-Shuo Chu; Zhenxing Wang; Yadong Wang 001 (IEEE ACM Trans. Comput. Biol. Bioinform., 2015)

GLProbs: Aligning Multiple Sequences Adaptively. - Yongtao Ye; David Wai-Lok Cheung; Yadong Wang 001; Siu-Ming Yiu; Qing Zhan; Tak Wah Lam; Hing-Fung Ting (IEEE ACM Trans. Comput. Biol. Bioinform., 2015)

Measuring phenotype semantic similarity using Human Phenotype Ontology. - Jiajie Peng; Hansheng Xue; Yukai Shao; Xuequn Shang 001; Yadong Wang 001; Jin Chen 004 (BIBM, 2016)

ERDS-pe: A paired hidden Markov model for copy number variant detection from whole-exome sequencing data. - Renjie Tan; Jixuan Wang; Xiaoliang Wu; Guoqiang Wan; Rongjie Wang; Rui Ma; Zhijie Han 002; Wenyang Zhou; Shuilin Jin; Qinghua Jiang; Yadong Wang 001 (BIBM, 2016)

DMcompress: Dynamic Markov models for bacterial genome compression. - Rongjie Wang; Mingxiang Teng; Yang Bai; Tianyi Zang; Yadong Wang 001 (BIBM, 2016)

deBGA: read alignment with de Bruijn graph-based seed and extension. - Bo Liu 023; Hongzhe Guo; Michael Brudno; Yadong Wang 001 (Bioinform., 2016)

rHAT: fast alignment of noisy long reads with regional hashing. - Bo Liu 023; Dengfeng Guan; Mingxiang Teng; Yadong Wang 001 (Bioinform., 2016)

Joint detection of copy number variations in parent-offspring trios. - Yongzhuang Liu; Jian Liu; Jianguo Lu; Jiajie Peng; Liran Juan; Xiaolin Zhu 002; Bingshan Li; Yadong Wang 001 (Bioinform., 2016)

deBWT: parallel construction of Burrows-Wheeler Transform for large collection of genomes with de Bruijn-branch encoding. - Bo Liu 023; Dixian Zhu; Yadong Wang 001 (Bioinform., 2016)

Extending gene ontology with gene association networks. - Jiajie Peng; Tao Wang 082; Jixuan Wang; Yadong Wang 001; Jin Chen 004 (Bioinform., 2016)

A network-based pathway-expanding approach for pathway analysis. - Qiaosheng Zhang; Jie Li 055; Haozhe Xie; Hanqing Xue; Yadong Wang 001 (BMC Bioinform., 2016)

Comparison among dimensionality reduction techniques based on Random Projection for cancer classification. - Haozhe Xie; Jie Li 055; Qiaosheng Zhang; Yadong Wang 001 (Comput. Biol. Chem., 2016)

Pre-SCNAClonal: Efficient GC bias correction for SCNA based tumor subclonal populations inferring. - Yan-Shuo Chu; Mingxiang Teng; Zhenxing Wang; Yongtian Wang; Yadong Wang 001 (BIBM, 2017)

Pysubsim-tree: A package for simulating tumor genomes according to tumor evolution history. - Yan-Shuo Chu; Ling Wang 005; Rongjie Wang; Mingxiang Teng; Yadong Wang 001 (BIBM, 2017)

ABDTR: Approximation-Based Dynamic Traffic Regulation for Networks-on-Chip Systems. - Ling Wang 005; Xiaohang Wang 001; Yadong Wang 001 (ICCD, 2017)

LAMSA: fast split read alignment with long approximate matches. - Bo Liu 023; Yan Gao 031; Yadong Wang 001 (Bioinform., 2017)

rMFilter: acceleration of long read-based structure variation calling by chimeric read filtering. - Bo Liu 023; Tao Jiang 021; Siu-Ming Yiu; Junyi Li; Yadong Wang 001 (Bioinform., 2017)

DisSetSim: an online system for calculating similarity between disease sets. - Yang Hu 008; Lingling Zhao; Zhiyan Liu; Hong Ju; Hongbo Shi; Peigang Xu; Yadong Wang 001; Liang Cheng 006 (J. Biomed. Semant., 2017)

Identifying term relations cross different gene ontology categories. - Jiajie Peng; Honggang Wang; Junya Lu; Weiwei Hui; Yadong Wang 001; Xuequn Shang 001 (BMC Bioinform., 2017)

DTWscore: differential expression and cell clustering analysis for time-series single-cell RNA-seq data. - Zhuo Wang; Shuilin Jin; Guiyou Liu; Xiurui Zhang; Nan Wang; Deliang Wu; Yang Hu 008; Chiping Zhang; Qinghua Jiang; Li Xu; Yadong Wang 001 (BMC Bioinform., 2017)

A novel method to measure the semantic similarity of HPO terms. - Jiajie Peng; Hansheng Xue; Yukai Shao; Xuequn Shang 001; Yadong Wang 001; Jin Chen 004 (Int. J. Data Min. Bioinform., 2017)

Accurate annotation of metagenomic data without species-level references. - Haobin Yao; Tak Wah Lam; H. F. Ting; Siu-Ming Yiu; Yadong Wang 001; Bo Liu 023 (Int. J. Data Min. Bioinform., 2017)

WDNfinder: A method for minimum driver node set detection and analysis in directed and weighted biological network. - Yan-Shuo Chu; Zhenxing Wang; Rongjie Wang; Ningyi Zhang; Jie Li 055; Yang Hu 008; Mingxiang Teng; Yadong Wang 001 (J. Bioinform. Comput. Biol., 2017)

A Network-on-Chip Accelerator for Genome Variant Analysis. - Ling Wang 005; Yadong Wang 001 (BIBM, 2018)

rCANID: read Clustering and Assembly-based Novel Insertion Detection tool. - Yilei Fu; Tao Jiang 021; Bo Liu 023; Yadong Wang 001 (BIBM, 2018)

deSPI: efficient classification of metagenomics reads with lightweight de Bruijn graph-based reference indexing. - Dengfeng Guan; Bo Liu 023; Yadong Wang 001 (BIBM, 2018)

Fast variation-aware read alignment with deBGA-VARA. - Hongzhe Guo; Bo Liu 023; Dengfeng Guan; Yilei Fu; Yadong Wang 001 (BIBM, 2018)

DeepDNA: a hybrid convolutional and recurrent neural network for compressing human mitochondrial genomes. - Rongjie Wang; Yang Bai; Yan-Shuo Chu; Zhenxing Wang; Yongtian Wang; Mingrui Sun; Junyi Li; Tianyi Zang; Yadong Wang 001 (BIBM, 2018)

Predicting candidate disease-related lncRNAs based on network random walk. - Yongtian Wang; Liran Juan; Jiajie Peng; Tianyi Zang; Yadong Wang 001 (BIBM, 2018)

Identifying Representative Network Motifs for Inferring Higher-order Structure of Biological Networks. - Tao Wang 082; Jiajie Peng; Yadong Wang 001; Jin Chen 004 (BIBM, 2018)

Modeling and correct the GC bias of tumor and normal WGS data for SCNA based tumor subclonal population inferring. - Yan-Shuo Chu; Mingxiang Teng; Yadong Wang 001 (BMC Bioinform., 2018)

Y-SPCR: A new dimensionality reduction method for gene expression data classification. - Jie Li 055; Zhun Zhao; Li Zhou; Yadong Wang 001 (BIBM, 2019)

DNMFilter_Indel: Filtering de novo Indels in Parent-Offspring Trios. - Yongzhuang Liu; Jian Liu; Yadong Wang 001 (BIBM, 2019)

SALT: a fast, memory-efficient and SNP-aware short read alignment tool. - Wei Quan; Bo Liu 023; Yadong Wang 001 (BIBM, 2019)

A Bidirectional Fuzzy Index and Approximate Search Algorithm for Next Generation Sequencing. - Wei Quan; Guangri Quan; Bo Liu 023; Yadong Wang 001 (BIBM, 2019)

An automated quality control pipeline for eQTL analysis with RNA-seq data. - Tao Wang 082; Junpeng Ruan; Quanwei Yin; Xianjun Dong; Yadong Wang 001 (BIBM, 2019)

Prediction of Human LncRNAs Based on Integrated Information Entropy Features. - Junyi Li; Huinian Li; Li Zhang; Qingzhe Xu; Yuan Ping; Xiaozhu Jing; Wei Jiang 023; Bo Liu 023; Yadong Wang 001 (ICIC (2), 2019)

An Approximate Bufferless Network-on-Chip. - Ling Wang 005; Xiaohang Wang 001; Yadong Wang 001 (IEEE Access, 2019)

TideHunter: efficient and sensitive tandem repeat detection from noisy long-reads using seed-and-chain. - Yan Gao 031; Bo Liu 023; Yadong Wang 001; Yi Xing (Bioinform., 2019)

rMETL: sensitive mobile element insertion detection with long read realignment. - Tao Jiang 021; Bo Liu 023; Junyi Li; Yadong Wang 001 (Bioinform., 2019)

Joint detection of germline and somatic copy number events in matched tumor-normal sample pairs. - Yongzhuang Liu; Jian Liu; Yadong Wang 001 (Bioinform., 2019)

Integrated entropy-based approach for analyzing exons and introns in DNA sequences. - Junyi Li; Li Zhang; Huinian Li; Yuan Ping; Qingzhe Xu; Rongjie Wang; Renjie Tan; Zhen Wang; Bo Liu 023; Yadong Wang 001 (BMC Bioinform., 2019)

Prioritizing candidate diseases-related metabolites based on literature and functional similarity. - Yongtian Wang; Liran Juan; Jiajie Peng; Tianyi Zang; Yadong Wang 001 (BMC Bioinform., 2019)

LncDisAP: a computation model for LncRNA-disease association prediction based on multiple biological datasets. - Yongtian Wang; Liran Juan; Jiajie Peng; Tianyi Zang; Yadong Wang 001 (BMC Bioinform., 2019)

Simulating genetically heterozygous genomes in the tumour tissue according to its clonal evolution history. - Yan-Shuo Chu; Mingxiang Teng; Yadong Wang 001 (Int. J. Comput. Biol. Drug Des., 2019)

Fast read alignment with incorporation of known genomic variants. - Hongzhe Guo; Bo Liu 023; Dengfeng Guan; Yilei Fu; Yadong Wang 001 (BMC Medical Informatics Decis. Mak., 2019)

Assessment of Machine Learning Methods for Classification in Single Cell ATAC-seq. - Zhe Cui; Bo Liu 023; Liran Juan; Tianyi Zang; Tao Jiang 021; Yadong Wang 001 (BIBM, 2020)

GONET: A Deep Network to Annotate Proteins via Recurrent Convolution Networks. - Junyi Li; Lixin Wang; Xiaoshuai Zhang; Bo Liu 023; Yadong Wang 001 (BIBM, 2020)

An Approximate Multiplane Network-on-Chip. - Ling Wang 005; Yadong Wang 001; Xiaohang Wang 001 (DATE, 2020)

HGAlinker: Drug-Disease Association Prediction Based on Attention Mechanism of Heterogeneous Graph. - Xiaozhu Jing; Wei Jiang 023; Zhongqing Zhang; Yadong Wang 001; Junyi Li (ICIC (2), 2020)

Filtering de novo indels in parent-offspring trios. - Yongzhuang Liu; Jian Liu; Yadong Wang 001 (BMC Bioinform., 2020)

Prognostic prediction of carcinoma by a differential-regulatory-network-embedded deep neural network. - Junyi Li; Yuan Ping; Hong Li; Huinian Li; Ying Liu; Bo Liu 023; Yadong Wang 001 (Comput. Biol. Chem., 2020)

Mining Relationships among Multiple Entities in Biological Networks. - Jiajie Peng; Linjiao Zhu; Yadong Wang 001; Jin Chen 004 (IEEE ACM Trans. Comput. Biol. Bioinform., 2020)

Differentially Expressed Mutant Genes Reveal Potential Prognostic Markers For Lung Adenocarcinoma. - Yue Liu; Shizheng Qiu; Yang Hu 008; Yadong Wang 001 (BIBM, 2021)

PocaCNV: A Tool to Detect Copy Number Variants from Population-Scale Genome Sequencing Data. - Zhendong Zhang; Yongzhuang Liu; Gaoyang Li; Yadong Wang 001 (BIBM, 2021)

ScSSC: Semi-supervised Single Cell Clustering Based on 2D Embedding. - Naile Shi; Yulin Wu 001; Linlin Du; Bo Liu 023; Yadong Wang 001; Junyi Li (ICIC (3), 2021)

A deep learning approach for filtering structural variants in short read sequencing data. - Yongzhuang Liu; Yalin Huang; Guohua Wang; Yadong Wang 001 (Briefings Bioinform., 2021)

An integrated approach for copy number variation discovery in parent-offspring trios. - Yongzhuang Liu; Xiaoliang Wu; Yadong Wang 001 (Briefings Bioinform., 2021)

abPOA: an SIMD-based C library for fast partial order alignment using adaptive band. - Yan Gao 031; Yongzhuang Liu; Yanmei Ma; Bo Liu 023; Yadong Wang 001; Yi Xing (Bioinform., 2021)

Erratum to: abPOA: an SIMD-based C library for fast partial order alignment using adaptive band. - Yan Gao 031; Yongzhuang Liu; Yanmei Ma; Bo Liu 023; Yadong Wang 001; Yi Xing (Bioinform., 2021)

SKSV: ultrafast structural variation detection from circular consensus sequencing reads. - Yadong Liu; Tao Jiang 021; Junhao Su; Bo Liu 023; Tianyi Zang; Yadong Wang 001 (Bioinform., 2021)

Factor graph-aggregated heterogeneous network embedding for disease-gene association prediction. - Ming He; Chen Huang; Bo Liu 023; Yadong Wang 001; Junyi Li (BMC Bioinform., 2021)

Long-read sequencing settings for efficient structural variation detection based on comprehensive evaluation. - Tao Jiang 021; Shiqi Liu; Shuqi Cao; Yadong Liu; Zhe Cui; Yadong Wang 001; Hongzhe Guo (BMC Bioinform., 2021)

IIMLP: integrated information-entropy-based method for LncRNA prediction. - Junyi Li; Huinian Li; Xiao Ye; Li Zhang; Qingzhe Xu; Yuan Ping; Xiaozhu Jing; Wei Jiang 023; Qing Liao 001; Bo Liu 023; Yadong Wang 001 (BMC Bioinform., 2021)

Fast and SNP-aware short read alignment with SALT. - Wei Quan; Bo Liu 023; Yadong Wang 001 (BMC Bioinform., 2021)

A pipeline for RNA-seq based eQTL analysis with automated quality control procedures. - Tao Wang 082; Yongzhuang Liu; Junpeng Ruan; Xianjun Dong; Yadong Wang 001; Jiajie Peng (BMC Bioinform., 2021)

ScGSLC: An unsupervised graph similarity learning framework for single-cell RNA-seq data clustering. - Junyi Li; Wei Jiang 023; Henry Han; Jing Liu; Bo Liu 023; Yadong Wang 001 (Comput. Biol. Chem., 2021)

deGSM: Memory Scalable Construction Of Large Scale de Bruijn Graph. - Hongzhe Guo; Yilei Fu; Yan Gao 031; Junyi Li; Yadong Wang 001; Bo Liu 023 (IEEE ACM Trans. Comput. Biol. Bioinform., 2021)

WMMDCA: Prediction of Drug Responses by Weight-Based Modular Mapping in Cancer Cell Lines. - Shiming Wang; Jie Li 055; Yadong Wang 001 (IEEE ACM Trans. Comput. Biol. Bioinform., 2021)

Comparison of the Nanopore and PacBio sequencing technologies for DNA 5-methylcytosine detection. - Yadong Liu; Zhongyu Liu; Tao Jiang 021; Tianyi Zang; Yadong Wang 001 (BIBM, 2022)

NSAP: A Neighborhood Subgraph Aggregation Method for Drug-Disease Association Prediction. - Qiqi Jiao; Yu Jiang 002; Yang Zhang; Yadong Wang 001; Junyi Li (ICIC (2), 2022)

Enhancing discoveries of molecular QTL studies with small sample size using summary statistic imputation. - Tao Wang 082; Yongzhuang Liu; Quanwei Yin; Jiaquan Geng; Jin Chen 004; Xipeng Yin; Yongtian Wang; Xuequn Shang 001; Chunwei Tian; Yadong Wang 001; Jiajie Peng (Briefings Bioinform., 2022)

Correction to: Enhancing discoveries of molecular QTL studies with small sample size using summary statistic imputation. - Tao Wang 082; Yongzhuang Liu; Quanwei Yin; Jiaquan Geng; Jin Chen 004; Xipeng Yin; Yongtian Wang; Xuequn Shang 001; Chunwei Tian; Yadong Wang 001; Jiajie Peng (Briefings Bioinform., 2022)

Evaluation of classification in single cell atac-seq data with machine learning methods. - Hongzhe Guo; Zhongbo Yang; Tao Jiang 021; Shiqi Liu; Yadong Wang 001; Zhe Cui (BMC Bioinform., 2022)

M2PP: a novel computational model for predicting drug-targeted pathogenic proteins. - Shiming Wang; Jie Li 055; Yadong Wang 001 (BMC Bioinform., 2022)

Prediction of the disease causal genes based on heterogeneous network and multi-feature combination method. - Lexiang Wang; Mingxiao Wu; Yulin Wu 001; Xiaofeng Zhang; Sen Li; Ming He; Fan Zhang; Yadong Wang 001; Junyi Li (Comput. Biol. Chem., 2022)

OTUCD: Unsupervised GCN based metagenomics non-overlapping community detection. - Zhongqing Zhang; Qiqi Jiao; Yang Zhang; Bo Liu 023; Yadong Wang 001; Junyi Li (Comput. Biol. Chem., 2022)

A Neighborhood-Based Global Network Model to Predict Drug-Target Interactions. - Shiming Wang; Jie Li 055; Yadong Wang 001; Liran Juan (IEEE ACM Trans. Comput. Biol. Bioinform., 2022)

Deepgmd: A Graph-Neural-Network-Based Method to Detect Gene Regulator Module. - Xiao Ye; Yulin Wu 001; Jiangsheng Pi; Hong Li; Bo Liu 023; Yadong Wang 001; Junyi Li (IEEE ACM Trans. Comput. Biol. Bioinform., 2022)

Comprehensive evaluation of RNA-seq alignment methods based on long-read sequencing data. - Yadong Liu; Hongzhe Guo; Zhenhao Lu; Yadong Wang 001; Zhongyu Liu; Tao Jiang 021 (BIBM, 2023)

Identification of risk genes and biological pathways influencing myopia via transcriptome association study and biomedical ontology methods. - Shizheng Qiu; Yadong Wang 001; Ying Zhang; Yang Hu 008 (BIBM, 2023)

ScCCL: Single-Cell Data Clustering Based on Self-Supervised Contrastive Learning. - Linlin Du; Rui Han; Bo Liu 023; Yadong Wang 001; Junyi Li (IEEE ACM Trans. Comput. Biol. Bioinform., 2023)

PSPGO: Cross-Species Heterogeneous Network Propagation for Protein Function Prediction. - Kaitao Wu; Lexiang Wang; Bo Liu 023; Yang Liu 039; Yadong Wang 001; Junyi Li (IEEE ACM Trans. Comput. Biol. Bioinform., 2023)

Prot2GO: Predicting GO Annotations From Protein Sequences and Interactions. - Xiaoshuai Zhang; Lixin Wang; Hucheng Liu; Xiaofeng Zhang; Bo Liu 023; Yadong Wang 001; Junyi Li (IEEE ACM Trans. Comput. Biol. Bioinform., 2023)

Real-time Image Enhancement with Attention Aggregation. - Qiqi Gao; Jie Li 055; Tiejun Zhao; Yadong Wang 001 (ACM Trans. Multim. Comput. Commun. Appl., 2023)

HNetGO: protein function prediction via heterogeneous network transformer. - Xiaoshuai Zhang; Huannan Guo; Fan Zhang; Xuan Wang; Kaitao Wu; Shizheng Qiu; Bo Liu 023; Yadong Wang 001; Yang Hu 008; Junyi Li (Briefings Bioinform., 2023)

Struct2GO: protein function prediction based on graph pooling algorithm and AlphaFold2 structure information. - Peishun Jiao; Beibei Wang; Xuan Wang; Bo Liu 023; Yadong Wang 001; Junyi Li (Bioinform., 2023)

Predicting Drug-Disease Associations Through Similarity Network Fusion and Multi-View Feature Projection Representation. - Shiming Wang; Jie Li 055; Dong Wang 066; Dechen Xu; Jiahuan Jin; Yadong Wang 001 (IEEE J. Biomed. Health Informatics, 2023)

miniSNV: accurate and fast single nucleotide variant calling from nanopore sequencing data. - Miao Cui; Yadong Liu; Xian Yu; Hongzhe Guo; Tao Jiang 021; Yadong Wang 001; Bo Liu 023 (Briefings Bioinform., 2024)

Kled: an ultra-fast and sensitive structural variant detection tool for long-read sequencing data. - Zhendong Zhang; Tao Jiang 021; Gaoyang Li; Shuqi Cao; Yadong Liu; Bo Liu 023; Yadong Wang 001 (Briefings Bioinform., 2024)

SCancerRNA: Expression at the Single-cell Level and Interaction Resource of Non-coding RNA Biomarkers for Cancers. - Hongzhe Guo; Liyuan Zhang; Xinran Cui; Liang Cheng 006; Tianyi Zhao; Yadong Wang 001 (Genom. Proteom. Bioinform., 2024)

Special Issue on Methods and Applications for Large-Scale Intelligent Transportation Systems [Guest Editorial]. - Zhiyuan Liu 002; David Z. W. Wang; Yu Jiang 002; Nirajan Shiwakoti; Yadong Wang 001 (IEEE Intell. Transp. Syst. Mag., 2024)

DIRMC: a database of immunotherapy-related molecular characteristics. - Yue Liu; Yuhuan Zhou; Xiumei Hu; Wuri Le-Ge; Haoyan Wang; Tao Jiang 021; Junyi Li; Yang Hu 008; Yadong Wang 001 (Database J. Biol. Databases Curation, 2024)

DVA: predicting the functional impact of single nucleotide missense variants. - Dong Wang 066; Jie Li 055; Edwin Wang; Yadong Wang 001 (BMC Bioinform., 2024)