Yadong Wang

157 papers A 1C 1Journal 104Unranked 49
YearRankTypeTitle / Venue / Authors
2026 J jnl
cuteSV-OL: a real-time structural variation detection framework for nanopore sequencing devices.
Bioinform.
Weimin Guo, Yadong Liu, Yadong Wang, Tao Jiang
2025 J jnl
CKG-TPI: integrating collaborative knowledge graph with sequence interactions for TCR-peptide binding specificity.
Briefings Bioinform.
Yue Liu, Haoyan Wang, Guohua Wang, Yadong Liu, Tao Jiang, Yadong Wang
2025 J jnl
DMGAT: predicting ncRNA-drug resistance associations based on diffusion map and heterogeneous graph attention network.
Briefings Bioinform.
Tingyu Liu, Qiuhao Chen, Renjie Liu, Yuzhi Sun, Yadong Wang, Yan Zhu, Tianyi Zhao
2025 — conf
DNAMatch: An Ultra-Fast and Memory-Efficient Deep Learning Framework for Aligning Ultra-Long DNA Fragments.
BIBM
Yuansong Zhu, Chuanmin Wu, Yadong Wang, Tao Jiang, Yadong Liu
2025 — conf
GDTGO: Advancing Protein Function Prediction via Graph Convolutional Network and Iterative Optimization.
BIBM
Liyuan Zhang, Yuzhi Sun, Renjie Liu, Yadong Wang, Tianyi Zhao
2025 J jnl
MSNGO: multi-species protein function annotation based on 3D protein structure and network propagation.
Bioinform.
Beibei Wang, Boyue Cui, Shiqu Chen, Xuan Wang, Yadong Wang, Junyi Li
2025 J jnl
MSNGO: multi-species protein function annotation based on 3D protein structure and network propagation.
CoRR
Beibei Wang, Boyue Cui, Shiqu Chen, Xuan Wang, Yadong Wang, Junyi Li
2025 J jnl
MetImputBERT: a pretrained BERT framework for missing value imputation in NMR metabolomics data.
Briefings Bioinform.
Shizheng Qiu, Yang Hu, Guiyou Liu, Yadong Wang
2025 — conf
MethSV: A Long-Read-Based Framework for Profiling DNA Methylation in Structural Variation.
BIBM
Yang Li, Weize Kong, Yadong Liu, Yadong Wang, Tao Jiang
2025 J jnl
Proformer: a multimodal proteomics transformer model for multidisease early risk assessment.
Briefings Bioinform.
Shizheng Qiu, Yang Hu, Jingjing Liu, Yadong Wang
2025 — conf
RVC: A Real-Time Variant Calling Framework for Short-Read Sequencing Data.
BIBM
Miao Cui, Xian Yu, Tao Jiang, Yadong Wang, Bo Liu, Guohua Wang, Yadong Liu
2025 — conf
SimPG: A Pangenome-Guided Population-Specific Human Genome Simulation Tool.
BIBM
Hongyang Yu, Hao Wang, Yadong Liu, Yadong Wang, Tao Jiang
2024 J jnl
Automatically Detecting Anchor Cells and Clustering for scRNA-Seq Data Using scTSNN.
IEEE J. Biomed. Health Informatics
Qiaoming Liu, Dandan Zhang, Dong Wang, Guohua Wang, Yadong Wang
2024 — conf
Comprehensive Benchmarking of Genotype Imputation Tools Using a Large-Scale Chinese Reference Panel.
BIBM
Xin Li, Yadong Liu, Zhongbo Yang, Yadong Wang, Tao Jiang
2024 — conf
Comprehensive evaluation of haplotype phasing tools with different strategies across diverse sequence technologies.
BIBM
Zhongbo Yang, Zhenhao Lu, Xin Li, Tao Jiang, Yadong Wang, Yadong Liu
2024 J jnl
DIRMC: a database of immunotherapy-related molecular characteristics.
Database J. Biol. Databases Curation
Yue Liu, Yuhuan Zhou, Xiumei Hu, Wuri Le-Ge, Haoyan Wang, Tao Jiang, Junyi Li, Yang Hu, Yadong Wang
2024 J jnl
DVA: predicting the functional impact of single nucleotide missense variants.
BMC Bioinform.
Dong Wang, Jie Li, Edwin Wang, Yadong Wang
2024 J jnl
HBFormer: a single-stream framework based on hybrid attention mechanism for identification of human-virus protein-protein interactions.
Bioinform.
Liyuan Zhang, Sicong Wang, Yadong Wang, Tianyi Zhao
2024 J jnl
Kled: an ultra-fast and sensitive structural variant detection tool for long-read sequencing data.
Briefings Bioinform.
Zhendong Zhang, Tao Jiang, Gaoyang Li, Shuqi Cao, Yadong Liu, Bo Liu, Yadong Wang
2024 J jnl
Long-read sequencing unveils novel somatic variants and methylation patterns in the genetic information system of early lung cancer.
Comput. Biol. Medicine
Xinran Cui, Qingyan Lin, Ming Chen, Yidan Wang, Yiwen Wang, Yadong Wang, Jiang Tao, Honglei Yin, Tianyi Zhao
2024 J jnl
MCDHGN: heterogeneous network-based cancer driver gene prediction and interpretability analysis.
Bioinform.
Lexiang Wang, Jingli Zhou, Xuan Wang, Yadong Wang, Junyi Li
2024 J jnl
MEHunter: transformer-based mobile element variant detection from long reads.
Bioinform.
Tao Jiang, Zuji Zhou, Zhendong Zhang, Shuqi Cao, Yadong Wang, Yadong Liu
2024 J jnl
SCancerRNA: Expression at the Single-cell Level and Interaction Resource of Non-coding RNA Biomarkers for Cancers.
Genom. Proteom. Bioinform.
Hongzhe Guo, Liyuan Zhang, Xinran Cui, Liang Cheng, Tianyi Zhao, Yadong Wang
2024 J jnl
Special Issue on Methods and Applications for Large-Scale Intelligent Transportation Systems [Guest Editorial].
IEEE Intell. Transp. Syst. Mag.
Zhiyuan Liu, David Z. W. Wang, Yu Jiang, Nirajan Shiwakoti, Yadong Wang
2024 J jnl
THItoGene: a deep learning method for predicting spatial transcriptomics from histological images.
Briefings Bioinform.
Yuran Jia, Junliang Liu, Li Chen, Tianyi Zhao, Yadong Wang
2024 J jnl
circ2DGNN: circRNA-Disease Association Prediction via Transformer-Based Graph Neural Network.
IEEE ACM Trans. Comput. Biol. Bioinform.
Keliang Cen, Zheming Xing, Xuan Wang, Yadong Wang, Junyi Li
2024 J jnl
miniSNV: accurate and fast single nucleotide variant calling from nanopore sequencing data.
Briefings Bioinform.
Miao Cui, Yadong Liu, Xian Yu, Hongzhe Guo, Tao Jiang, Yadong Wang, Bo Liu
2024 — conf
scEAGC: an efficient anchor graph clustering for single-cell transcriptomics and proteomics data.
BIBM
Qiaoming Liu, Yadong Wang, Guohua Wang
2023 — conf
Comprehensive evaluation of RNA-seq alignment methods based on long-read sequencing data.
BIBM
Yadong Liu, Hongzhe Guo, Zhenhao Lu, Yadong Wang, Zhongyu Liu, Tao Jiang
2023 J jnl
HNetGO: protein function prediction via heterogeneous network transformer.
Briefings Bioinform.
Xiaoshuai Zhang, Huannan Guo, Fan Zhang, Xuan Wang, Kaitao Wu, Shizheng Qiu, Bo Liu, Yadong Wang, Yang Hu, Junyi Li
2023 — conf
Identification of risk genes and biological pathways influencing myopia via transcriptome association study and biomedical ontology methods.
BIBM
Shizheng Qiu, Yadong Wang, Ying Zhang, Yang Hu
2023 J jnl
PSPGO: Cross-Species Heterogeneous Network Propagation for Protein Function Prediction.
IEEE ACM Trans. Comput. Biol. Bioinform.
Kaitao Wu, Lexiang Wang, Bo Liu, Yang Liu, Yadong Wang, Junyi Li
2023 J jnl
Predicting Drug-Disease Associations Through Similarity Network Fusion and Multi-View Feature Projection Representation.
IEEE J. Biomed. Health Informatics
Shiming Wang, Jie Li, Dong Wang, Dechen Xu, Jiahuan Jin, Yadong Wang
2023 J jnl
Prot2GO: Predicting GO Annotations From Protein Sequences and Interactions.
IEEE ACM Trans. Comput. Biol. Bioinform.
Xiaoshuai Zhang, Lixin Wang, Hucheng Liu, Xiaofeng Zhang, Bo Liu, Yadong Wang, Junyi Li
2023 J jnl
Real-time Image Enhancement with Attention Aggregation.
ACM Trans. Multim. Comput. Commun. Appl.
Qiqi Gao, Jie Li, Tiejun Zhao, Yadong Wang
2023 J jnl
ScCCL: Single-Cell Data Clustering Based on Self-Supervised Contrastive Learning.
IEEE ACM Trans. Comput. Biol. Bioinform.
Linlin Du, Rui Han, Bo Liu, Yadong Wang, Junyi Li
2023 J jnl
Struct2GO: protein function prediction based on graph pooling algorithm and AlphaFold2 structure information.
Bioinform.
Peishun Jiao, Beibei Wang, Xuan Wang, Bo Liu, Yadong Wang, Junyi Li
2022 J jnl
A Neighborhood-Based Global Network Model to Predict Drug-Target Interactions.
IEEE ACM Trans. Comput. Biol. Bioinform.
Shiming Wang, Jie Li, Yadong Wang, Liran Juan
2022 — conf
Comparison of the Nanopore and PacBio sequencing technologies for DNA 5-methylcytosine detection.
BIBM
Yadong Liu, Zhongyu Liu, Tao Jiang, Tianyi Zang, Yadong Wang
2022 J jnl
Correction to: Enhancing discoveries of molecular QTL studies with small sample size using summary statistic imputation.
Briefings Bioinform.
Tao Wang, Yongzhuang Liu, Quanwei Yin, Jiaquan Geng, Jin Chen, Xipeng Yin, Yongtian Wang, Xuequn Shang, Chunwei Tian, Yadong Wang, Jiajie Peng
2022 J jnl
Deepgmd: A Graph-Neural-Network-Based Method to Detect Gene Regulator Module.
IEEE ACM Trans. Comput. Biol. Bioinform.
Xiao Ye, Yulin Wu, Jiangsheng Pi, Hong Li, Bo Liu, Yadong Wang, Junyi Li
2022 J jnl
Enhancing discoveries of molecular QTL studies with small sample size using summary statistic imputation.
Briefings Bioinform.
Tao Wang, Yongzhuang Liu, Quanwei Yin, Jiaquan Geng, Jin Chen, Xipeng Yin, Yongtian Wang, Xuequn Shang, Chunwei Tian, Yadong Wang, Jiajie Peng
2022 J jnl
Evaluation of classification in single cell atac-seq data with machine learning methods.
BMC Bioinform.
Hongzhe Guo, Zhongbo Yang, Tao Jiang, Shiqi Liu, Yadong Wang, Zhe Cui
2022 J jnl
M2PP: a novel computational model for predicting drug-targeted pathogenic proteins.
BMC Bioinform.
Shiming Wang, Jie Li, Yadong Wang
2022 J jnl
Metastasis-related gene identification by compound constrained NMF and a semisupervised cluster approach using pancancer multiomics features.
Comput. Biol. Medicine
Yining Xu, Xinran Cui, Liyuan Zhang, Tianyi Zhao, Yadong Wang
2022 — conf
NSAP: A Neighborhood Subgraph Aggregation Method for Drug-Disease Association Prediction.
ICIC (2)
Qiqi Jiao, Yu Jiang, Yang Zhang, Yadong Wang, Junyi Li
2022 J jnl
OTUCD: Unsupervised GCN based metagenomics non-overlapping community detection.
Comput. Biol. Chem.
Zhongqing Zhang, Qiqi Jiao, Yang Zhang, Bo Liu, Yadong Wang, Junyi Li
2022 J jnl
Prediction of the disease causal genes based on heterogeneous network and multi-feature combination method.
Comput. Biol. Chem.
Lexiang Wang, Mingxiao Wu, Yulin Wu, Xiaofeng Zhang, Sen Li, Ming He, Fan Zhang, Yadong Wang, Junyi Li
2021 J jnl
A deep learning approach for filtering structural variants in short read sequencing data.
Briefings Bioinform.
Yongzhuang Liu, Yalin Huang, Guohua Wang, Yadong Wang
2021 J jnl
A pipeline for RNA-seq based eQTL analysis with automated quality control procedures.
BMC Bioinform.
Tao Wang, Yongzhuang Liu, Junpeng Ruan, Xianjun Dong, Yadong Wang, Jiajie Peng
2021 J jnl
An integrated approach for copy number variation discovery in parent-offspring trios.
Briefings Bioinform.
Yongzhuang Liu, Xiaoliang Wu, Yadong Wang
2021 J jnl
Correction to: Efficient iterative Hi-C scaffolder based on N-best neighbors.
BMC Bioinform.
Dengfeng Guan, Shane A. McCarthy, Zemin Ning, Guohua Wang, Yadong Wang, Richard Durbin
2021 — conf
Differentially Expressed Mutant Genes Reveal Potential Prognostic Markers For Lung Adenocarcinoma.
BIBM
Yue Liu, Shizheng Qiu, Yang Hu, Yadong Wang
2021 J jnl
Efficient iterative Hi-C scaffolder based on N-best neighbors.
BMC Bioinform.
Dengfeng Guan, Shane A. McCarthy, Zemin Ning, Guohua Wang, Yadong Wang, Richard Durbin
2021 J jnl
Erratum to: abPOA: an SIMD-based C library for fast partial order alignment using adaptive band.
Bioinform.
Yan Gao, Yongzhuang Liu, Yanmei Ma, Bo Liu, Yadong Wang, Yi Xing
2021 J jnl
Factor graph-aggregated heterogeneous network embedding for disease-gene association prediction.
BMC Bioinform.
Ming He, Chen Huang, Bo Liu, Yadong Wang, Junyi Li
2021 J jnl
Fast and SNP-aware short read alignment with SALT.
BMC Bioinform.
Wei Quan, Bo Liu, Yadong Wang
2021 J jnl
IIMLP: integrated information-entropy-based method for LncRNA prediction.
BMC Bioinform.
Junyi Li, Huinian Li, Xiao Ye, Li Zhang, Qingzhe Xu, Yuan Ping, Xiaozhu Jing, Wei Jiang, Qing Liao, Bo Liu, Yadong Wang
2021 J jnl
Long-read sequencing settings for efficient structural variation detection based on comprehensive evaluation.
BMC Bioinform.
Tao Jiang, Shiqi Liu, Shuqi Cao, Yadong Liu, Zhe Cui, Yadong Wang, Hongzhe Guo
2021 — conf
Novel Multikernel Trick for Predicting Pan-CancerDistant Metastatic Sites Using a Feature Extraction Strategy.
BIBM
Yining Xu, Liyuan Zhang, Xinran Cui, Tianyi Zhao, Yadong Wang
2021 — conf
PocaCNV: A Tool to Detect Copy Number Variants from Population-Scale Genome Sequencing Data.
BIBM
Zhendong Zhang, Yongzhuang Liu, Gaoyang Li, Yadong Wang
2021 J jnl
SKSV: ultrafast structural variation detection from circular consensus sequencing reads.
Bioinform.
Yadong Liu, Tao Jiang, Junhao Su, Bo Liu, Tianyi Zang, Yadong Wang
2021 J jnl
ScGSLC: An unsupervised graph similarity learning framework for single-cell RNA-seq data clustering.
Comput. Biol. Chem.
Junyi Li, Wei Jiang, Henry Han, Jing Liu, Bo Liu, Yadong Wang
2021 — conf
ScSSC: Semi-supervised Single Cell Clustering Based on 2D Embedding.
ICIC (3)
Naile Shi, Yulin Wu, Linlin Du, Bo Liu, Yadong Wang, Junyi Li
2021 J jnl
WMMDCA: Prediction of Drug Responses by Weight-Based Modular Mapping in Cancer Cell Lines.
IEEE ACM Trans. Comput. Biol. Bioinform.
Shiming Wang, Jie Li, Yadong Wang
2021 J jnl
abPOA: an SIMD-based C library for fast partial order alignment using adaptive band.
Bioinform.
Yan Gao, Yongzhuang Liu, Yanmei Ma, Bo Liu, Yadong Wang, Yi Xing
2021 J jnl
deGSM: Memory Scalable Construction Of Large Scale de Bruijn Graph.
IEEE ACM Trans. Comput. Biol. Bioinform.
Hongzhe Guo, Yilei Fu, Yan Gao, Junyi Li, Yadong Wang, Bo Liu
2020 A conf
An Approximate Multiplane Network-on-Chip.
DATE
Ling Wang, Yadong Wang, Xiaohang Wang
2020 — conf
Assessment of Machine Learning Methods for Classification in Single Cell ATAC-seq.
BIBM
Zhe Cui, Bo Liu, Liran Juan, Tianyi Zang, Tao Jiang, Yadong Wang
2020 J jnl
Evaluating individual genome similarity with a topic model.
Bioinform.
Liran Juan, Yongtian Wang, Jingyi Jiang, Qi Yang, Guohua Wang, Yadong Wang
2020 J jnl
Filtering de novo indels in parent-offspring trios.
BMC Bioinform.
Yongzhuang Liu, Jian Liu, Yadong Wang
2020 — conf
GONET: A Deep Network to Annotate Proteins via Recurrent Convolution Networks.
BIBM
Junyi Li, Lixin Wang, Xiaoshuai Zhang, Bo Liu, Yadong Wang
2020 — conf
HGAlinker: Drug-Disease Association Prediction Based on Attention Mechanism of Heterogeneous Graph.
ICIC (2)
Xiaozhu Jing, Wei Jiang, Zhongqing Zhang, Yadong Wang, Junyi Li
2020 J jnl
Identifying and removing haplotypic duplication in primary genome assemblies.
Bioinform.
Dengfeng Guan, Shane A. McCarthy, Jonathan Wood, Kerstin Howe, Yadong Wang, Richard Durbin
2020 J jnl
Mining Relationships among Multiple Entities in Biological Networks.
IEEE ACM Trans. Comput. Biol. Bioinform.
Jiajie Peng, Linjiao Zhu, Yadong Wang, Jin Chen
2020 J jnl
Prognostic prediction of carcinoma by a differential-regulatory-network-embedded deep neural network.
Comput. Biol. Chem.
Junyi Li, Yuan Ping, Hong Li, Huinian Li, Ying Liu, Bo Liu, Yadong Wang
2019 — conf
A Bidirectional Fuzzy Index and Approximate Search Algorithm for Next Generation Sequencing.
BIBM
Wei Quan, Guangri Quan, Bo Liu, Yadong Wang
2019 J jnl
An Approximate Bufferless Network-on-Chip.
IEEE Access
Ling Wang, Xiaohang Wang, Yadong Wang
2019 — conf
An automated quality control pipeline for eQTL analysis with RNA-seq data.
BIBM
Tao Wang, Junpeng Ruan, Quanwei Yin, Xianjun Dong, Yadong Wang
2019 — conf
DNMFilter_Indel: Filtering de novo Indels in Parent-Offspring Trios.
BIBM
Yongzhuang Liu, Jian Liu, Yadong Wang
2019 J jnl
Fast read alignment with incorporation of known genomic variants.
BMC Medical Informatics Decis. Mak.
Hongzhe Guo, Bo Liu, Dengfeng Guan, Yilei Fu, Yadong Wang
2019 J jnl
Integrated entropy-based approach for analyzing exons and introns in DNA sequences.
BMC Bioinform.
Junyi Li, Li Zhang, Huinian Li, Yuan Ping, Qingzhe Xu, Rongjie Wang, Renjie Tan, Zhen Wang, Bo Liu, Yadong Wang
2019 J jnl
Joint detection of germline and somatic copy number events in matched tumor-normal sample pairs.
Bioinform.
Yongzhuang Liu, Jian Liu, Yadong Wang
2019 J jnl
LncDisAP: a computation model for LncRNA-disease association prediction based on multiple biological datasets.
BMC Bioinform.
Yongtian Wang, Liran Juan, Jiajie Peng, Tianyi Zang, Yadong Wang
2019 — conf
Prediction of Human LncRNAs Based on Integrated Information Entropy Features.
ICIC (2)
Junyi Li, Huinian Li, Li Zhang, Qingzhe Xu, Yuan Ping, Xiaozhu Jing, Wei Jiang, Bo Liu, Yadong Wang
2019 J jnl
Prioritizing candidate diseases-related metabolites based on literature and functional similarity.
BMC Bioinform.
Yongtian Wang, Liran Juan, Jiajie Peng, Tianyi Zang, Yadong Wang
2019 — conf
SALT: a fast, memory-efficient and SNP-aware short read alignment tool.
BIBM
Wei Quan, Bo Liu, Yadong Wang
2019 J jnl
Simulating genetically heterozygous genomes in the tumour tissue according to its clonal evolution history.
Int. J. Comput. Biol. Drug Des.
Yan-Shuo Chu, Mingxiang Teng, Yadong Wang
2019 J jnl
TideHunter: efficient and sensitive tandem repeat detection from noisy long-reads using seed-and-chain.
Bioinform.
Yan Gao, Bo Liu, Yadong Wang, Yi Xing
2019 — conf
Y-SPCR: A new dimensionality reduction method for gene expression data classification.
BIBM
Jie Li, Zhun Zhao, Li Zhou, Yadong Wang
2019 J jnl
rMETL: sensitive mobile element insertion detection with long read realignment.
Bioinform.
Tao Jiang, Bo Liu, Junyi Li, Yadong Wang
2018 — conf
A Network-on-Chip Accelerator for Genome Variant Analysis.
BIBM
Ling Wang, Yadong Wang
2018 — conf
DeepDNA: a hybrid convolutional and recurrent neural network for compressing human mitochondrial genomes.
BIBM
Rongjie Wang, Yang Bai, Yan-Shuo Chu, Zhenxing Wang, Yongtian Wang, Mingrui Sun, Junyi Li, Tianyi Zang, Yadong Wang
2018 — conf
Fast variation-aware read alignment with deBGA-VARA.
BIBM
Hongzhe Guo, Bo Liu, Dengfeng Guan, Yilei Fu, Yadong Wang
2018 — conf
Identifying Representative Network Motifs for Inferring Higher-order Structure of Biological Networks.
BIBM
Tao Wang, Jiajie Peng, Yadong Wang, Jin Chen
2018 J jnl
MeDReaders: a database for transcription factors that bind to methylated DNA.
Nucleic Acids Res.
Guohua Wang, Ximei Luo, Jianan Wang, Jun Wan, Shuli Xia, Heng Zhu, Jiang Qian, Yadong Wang
2018 J jnl
Modeling and correct the GC bias of tumor and normal WGS data for SCNA based tumor subclonal population inferring.
BMC Bioinform.
Yan-Shuo Chu, Mingxiang Teng, Yadong Wang
2018 — conf
Predicting candidate disease-related lncRNAs based on network random walk.
BIBM
Yongtian Wang, Liran Juan, Jiajie Peng, Tianyi Zang, Yadong Wang
2018 — conf
deSPI: efficient classification of metagenomics reads with lightweight de Bruijn graph-based reference indexing.
BIBM
Dengfeng Guan, Bo Liu, Yadong Wang
2018 — conf
rCANID: read Clustering and Assembly-based Novel Insertion Detection tool.
BIBM
Yilei Fu, Tao Jiang, Bo Liu, Yadong Wang
2017 J jnl
A novel method to measure the semantic similarity of HPO terms.
Int. J. Data Min. Bioinform.
Jiajie Peng, Hansheng Xue, Yukai Shao, Xuequn Shang, Yadong Wang, Jin Chen
2017 C conf
ABDTR: Approximation-Based Dynamic Traffic Regulation for Networks-on-Chip Systems.
ICCD
Ling Wang, Xiaohang Wang, Yadong Wang
2017 J jnl
Accurate annotation of metagenomic data without species-level references.
Int. J. Data Min. Bioinform.
Haobin Yao, Tak Wah Lam, H. F. Ting, Siu-Ming Yiu, Yadong Wang, Bo Liu
2017 J jnl
DTWscore: differential expression and cell clustering analysis for time-series single-cell RNA-seq data.
BMC Bioinform.
Zhuo Wang, Shuilin Jin, Guiyou Liu, Xiurui Zhang, Nan Wang, Deliang Wu, Yang Hu, Chiping Zhang, Qinghua Jiang, Li Xu, Yadong Wang
2017 J jnl
DisSetSim: an online system for calculating similarity between disease sets.
J. Biomed. Semant.
Yang Hu, Lingling Zhao, Zhiyan Liu, Hong Ju, Hongbo Shi, Peigang Xu, Yadong Wang, Liang Cheng
2017 J jnl
Identifying term relations cross different gene ontology categories.
BMC Bioinform.
Jiajie Peng, Honggang Wang, Junya Lu, Weiwei Hui, Yadong Wang, Xuequn Shang
2017 J jnl
LAMSA: fast split read alignment with long approximate matches.
Bioinform.
Bo Liu, Yan Gao, Yadong Wang
2017 — conf
Pre-SCNAClonal: Efficient GC bias correction for SCNA based tumor subclonal populations inferring.
BIBM
Yan-Shuo Chu, Mingxiang Teng, Zhenxing Wang, Yongtian Wang, Yadong Wang
2017 — conf
Pysubsim-tree: A package for simulating tumor genomes according to tumor evolution history.
BIBM
Yan-Shuo Chu, Ling Wang, Rongjie Wang, Mingxiang Teng, Yadong Wang
2017 J jnl
WDNfinder: A method for minimum driver node set detection and analysis in directed and weighted biological network.
J. Bioinform. Comput. Biol.
Yan-Shuo Chu, Zhenxing Wang, Rongjie Wang, Ningyi Zhang, Jie Li, Yang Hu, Mingxiang Teng, Yadong Wang
2017 J jnl
rMFilter: acceleration of long read-based structure variation calling by chimeric read filtering.
Bioinform.
Bo Liu, Tao Jiang, Siu-Ming Yiu, Junyi Li, Yadong Wang
2016 J jnl
A network-based pathway-expanding approach for pathway analysis.
BMC Bioinform.
Qiaosheng Zhang, Jie Li, Haozhe Xie, Hanqing Xue, Yadong Wang
2016 — conf
Accurate annotation of metagenomic data without species-level references.
BIBM
Haobin Yao, Tak Wah Lam, Hing-Fung Ting, Siu-Ming Yiu, Yadong Wang, Bo Liu
2016 J jnl
Comparison among dimensionality reduction techniques based on Random Projection for cancer classification.
Comput. Biol. Chem.
Haozhe Xie, Jie Li, Qiaosheng Zhang, Yadong Wang
2016 J jnl
Comparison among dimensionality reduction techniques based on Random Projection for cancer classification.
CoRR
Haozhe Xie, Jie Li, Qiaosheng Zhang, Yadong Wang
2016 — conf
DMcompress: Dynamic Markov models for bacterial genome compression.
BIBM
Rongjie Wang, Mingxiang Teng, Yang Bai, Tianyi Zang, Yadong Wang
2016 — conf
DisSetSim: An online system for calculating similarity between disease sets.
BIBM
Yang Hu, Lingling Zhao, Zhiyan Liu, Hong Ju, Hongbo Shi, Peigang Xu, Yadong Wang, Liang Cheng
2016 — conf
ERDS-pe: A paired hidden Markov model for copy number variant detection from whole-exome sequencing data.
BIBM
Renjie Tan, Jixuan Wang, Xiaoliang Wu, Guoqiang Wan, Rongjie Wang, Rui Ma, Zhijie Han, Wenyang Zhou, Shuilin Jin, Qinghua Jiang, Yadong Wang
2016 J jnl
Extending gene ontology with gene association networks.
Bioinform.
Jiajie Peng, Tao Wang, Jixuan Wang, Yadong Wang, Jin Chen
2016 — ed.
IEEE International Conference on Bioinformatics and Biomedicine, BIBM 2016, Shenzhen, China, December 15-18, 2016
BIBM
Tianhai Tian, Qinghua Jiang, Yunlong Liu, Kevin Burrage, Jiangning Song, Yadong Wang, Xiaohua Hu, Shinichi Morishita, Qian Zhu, Guohua Wang
2016 J jnl
Joint detection of copy number variations in parent-offspring trios.
Bioinform.
Yongzhuang Liu, Jian Liu, Jianguo Lu, Jiajie Peng, Liran Juan, Xiaolin Zhu, Bingshan Li, Yadong Wang
2016 — conf
Measuring phenotype semantic similarity using Human Phenotype Ontology.
BIBM
Jiajie Peng, Hansheng Xue, Yukai Shao, Xuequn Shang, Yadong Wang, Jin Chen
2016 — conf
Preface.
BIBM
Yadong Wang, Kevin Burrage, Yunlong Liu, Shinichi Morishita, Tianhai Tian, Qinghua Jiang, Jiangning Song, Guohua Wang, Qian Zhu, Xiaohua Tony Hu
2016 J jnl
deBGA: read alignment with de Bruijn graph-based seed and extension.
Bioinform.
Bo Liu, Hongzhe Guo, Michael Brudno, Yadong Wang
2016 J jnl
deBWT: parallel construction of Burrows-Wheeler Transform for large collection of genomes with de Bruijn-branch encoding.
Bioinform.
Bo Liu, Dixian Zhu, Yadong Wang
2016 J jnl
rHAT: fast alignment of noisy long reads with regional hashing.
Bioinform.
Bo Liu, Dengfeng Guan, Mingxiang Teng, Yadong Wang
2015 — conf
A web tool for measuring gene semantic similarities by combining gene ontology and gene co-function networks.
BCB
Jiajie Peng, Hongxiang Li, Yadong Wang, Jin Chen
2015 J jnl
Family genome browser: visualizing genomes with pedigree information.
Bioinform.
Liran Juan, Yongzhuang Liu, Yongtian Wang, Mingxiang Teng, Tianyi Zang, Yadong Wang
2015 J jnl
GLProbs: Aligning Multiple Sequences Adaptively.
IEEE ACM Trans. Comput. Biol. Bioinform.
Yongtao Ye, David Wai-Lok Cheung, Yadong Wang, Siu-Ming Yiu, Qing Zhan, Tak Wah Lam, Hing-Fung Ting
2015 J jnl
Improving multiple sequence alignment by using better guide trees.
BMC Bioinform.
Qing Zhan, Yongtao Ye, Tak Wah Lam, Siu-Ming Yiu, Yadong Wang, Hing-Fung Ting
2015 J jnl
LncRNA2Target: a database for differentially expressed genes after lncRNA knockdown or overexpression.
Nucleic Acids Res.
Qinghua Jiang, Jixuan Wang, Xiaoliang Wu, Rui Ma, Tianjiao Zhang, Shuilin Jin, Zhijie Han, Renjie Tan, Jiajie Peng, Guiyou Liu, Yu Li, Yadong Wang
2015 J jnl
Measuring semantic similarities by combining gene ontology annotations and gene co-function networks.
BMC Bioinform.
Jiajie Peng, Sahra Uygun, Taehyong Kim, Yadong Wang, Seung Y. Rhee, Jin Chen
2015 J jnl
Using Semantic Association to Extend and Infer Literature-Oriented Relativity Between Terms.
IEEE ACM Trans. Comput. Biol. Bioinform.
Liang Cheng, Jie Li, Yang Hu, Yue Jiang, Yongzhuang Liu, Yan-Shuo Chu, Zhenxing Wang, Yadong Wang
2015 J jnl
misFinder: identify mis-assemblies in an unbiased manner using reference and paired-end reads.
BMC Bioinform.
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, Yucui Dong, Guohui Zhou, Yadong Wang
2014 — ed.
2014 IEEE International Conference on Bioinformatics and Biomedicine, BIBM 2014, Belfast, United Kingdom, November 2-5, 2014
BIBM
Huiru Jane Zheng, Werner Dubitzky, Xiaohua Hu, Jin-Kao Hao, Daniel P. Berrar, Kwang-Hyun Cho, Yadong Wang, David R. Gilbert
2014 J jnl
A gradient-boosting approach for filtering
Bioinform.
Yongzhuang Liu, Bingshan Li, Renjie Tan, Xiaolin Zhu, Yadong Wang
2014 J jnl
An integrative approach for measuring semantic similarities using gene ontology.
BMC Syst. Biol.
Jiajie Peng, Hongxiang Li, Qinghua Jiang, Yadong Wang, Jin Chen
2014 J jnl
The personal genome browser: visualizing functions of genetic variants.
Nucleic Acids Res.
Liran Juan, Mingxiang Teng, Tianyi Zang, Yafeng Hao, Zhenxing Wang, Chengwu Yan, Yongzhuang Liu, Jie Li, Tianjiao Zhang, Yadong Wang
2014 J jnl
Towards integrative gene functional similarity measurement.
BMC Bioinform.
Jiajie Peng, Yadong Wang, Jin Chen
2014 J jnl
Transcriptional regulation prediction of antiestrogen resistance in breast cancer based on RNA polymerase II binding data.
BMC Bioinform.
Denan Zhang, Guohua Wang, Yadong Wang
2013 — conf
GLProbs: Aligning multiple sequences adaptively.
BCB
Yongtao Ye, David W. Cheung, Yadong Wang, Siu-Ming Yiu, Qing Zhan, Tak Wah Lam, Hing-Fung Ting
2013 J jnl
Identifying cross-category relations in gene ontology and constructing genome-specific term association networks.
BMC Bioinform.
Jiajie Peng, Jin Chen, Yadong Wang
2013 — conf
PERGA: A Paired-End Read Guided De Novo Assembler for Extending Contigs Using SVM Approach.
BCB
Xiao Zhu, Henry C. M. Leung, Francis Y. L. Chin, Siu-Ming Yiu, Guangri Quan, Bo Liu, Yadong Wang
2013 J jnl
Predicting human microRNA-disease associations based on support vector machine.
Int. J. Data Min. Bioinform.
Qinghua Jiang, Guohua Wang, Shuilin Jin, Yu Li, Yadong Wang
2012 J jnl
A differentor-based adaptive ontology-matching approach.
J. Inf. Sci.
Peigang Xu, Yadong Wang, Bo Liu
2012 J jnl
PRISM: Pair-read informed split-read mapping for base-pair level detection of insertion, deletion and structural variants.
Bioinform.
Yue Jiang, Yadong Wang, Michael Brudno
2012 J jnl
regSNPs: a strategy for prioritizing regulatory single nucleotide substitutions.
Bioinform.
Mingxiang Teng, Shoji Ichikawa, Leah R. Padgett, Yadong Wang, Matthew E. Mort, David N. Cooper, Daniel L. Koller, Tatiana Foroud, Howard J. Edenberg, Michael J. Econs, Yunlong Liu
2011 J jnl
A modulated empirical Bayes model for identifying topological and temporal estrogen receptor α regulatory networks in breast cancer.
BMC Syst. Biol.
Changyu Shen, Yi-Wen Huang, Yunlong Liu, Guohua Wang, Yuming Zhao, Zhiping Wang, Mingxiang Teng, Yadong Wang, David A. Flockhart, Todd C. Skaar, Pearlly Yan, Kenneth P. Nephew, Tim Hui-Ming Huang, Lang Li
2011 — conf
Empirical bayes model comparisons for differential methylation analysis.
GENSiPS
Mingxiang Teng, Yadong Wang, Yunlong Liu, Seongho Kim, Curtis Balch, Kenneth P. Nephew, Lang Li
2010 — conf
Alignment results of SOBOM for OAEI 2010.
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Peigang Xu, Yadong Wang, Liang Cheng, Tianyi Zang
2010 — conf
Predicting human microRNA-disease associations based on support vector machine.
BIBM
Qinghua Jiang, Guohua Wang, Tianjiao Zhang, Yadong Wang
2010 J jnl
Prioritization of disease microRNAs through a human phenome-microRNAome network.
BMC Syst. Biol.
Qinghua Jiang, Yangyang Hao, Guohua Wang, Liran Juan, Tianjiao Zhang, Mingxiang Teng, Yunlong Liu, Yadong Wang
2010 — conf
Weighted Network-Based Inference of Human MicroRNA-Disease Associations.
FCST
Qinghua Jiang, Yangyang Hao, Guohua Wang, Tianjiao Zhang, Yadong Wang
2009 — conf
Global Similarity and Local Variance in Human Gene Coexpression Networks.
AICI
Ivan Krivosheev, Lei Du, Hongzhi Wang, Shaojun Zhang, Yadong Wang, Xia Li
2009 J jnl
miR2Disease: a manually curated database for microRNA deregulation in human disease.
Nucleic Acids Res.
Qinghua Jiang, Yadong Wang, Yangyang Hao, Liran Juan, Mingxiang Teng, Xinjun Zhang, Meimei Li, Guohua Wang, Yunlong Liu
2008 J jnl
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.
BMC Syst. Biol.
Wei Jiang, Xia Li, Shaoqi Rao, Lihong Wang, Lei Du, Chuanxing Li, Chao Wu, Hongzhi Wang, Yadong Wang, Baofeng Yang
2005 — conf
A Novel Feature Ensemble Technology to Improve Prediction Performance of Multiple Heterogeneous Phenotypes Based on Microarray Data.
FSKD (2)
Haiyun Wang, Qingpu Zhang, Yadong Wang, Xia Li, Shaoqi Rao, Zuquan Ding