Minghua Deng

Publication Activity (10 Years)

Years Active: 2000-2024
Publications (10 Years): 67

Top Topics

Graph Classification

Predicting Protein

Hashing Methods

Domain Adaptation

Top Venues

Briefings Bioinform.

Publications

Qirui Guo, Musu Yuan, Lei Zhang, Minghua Deng
scPLAN: a hierarchical computational framework for single transcriptomics data annotation, integration and cell-type label refinement. Briefings Bioinform. 25 (4) (2024)
Yuyao Zhai, Liang Chen, Minghua Deng
scEVOLVE: cell-type incremental annotation without forgetting for single-cell RNA-seq data. Briefings Bioinform. 25 (2) (2024)
Xiao Luo, Daqing Wu, Yiyang Gu, Chong Chen, Luchen Liu, Jinwen Ma, Ming Zhang, Minghua Deng, Jianqiang Huang, Xian-Sheng Hua
Criterion-based Heterogeneous Collaborative Filtering for Multi-behavior Implicit Recommendation. ACM Trans. Knowl. Discov. Data 18 (1) (2024)
Musu Yuan, Hui Wan, Zihao Wang, Qirui Guo, Minghua Deng
SPANN: annotating single-cell resolution spatial transcriptome data with scRNA-seq data. Briefings Bioinform. 25 (2) (2024)
Xiao Luo, Wei Ju, Meng Qu, Yiyang Gu, Chong Chen, Minghua Deng, Xian-Sheng Hua, Ming Zhang
CLEAR: Cluster-Enhanced Contrast for Self-Supervised Graph Representation Learning. IEEE Trans. Neural Networks Learn. Syst. 35 (1) (2024)
Yuyao Zhai, Liang Chen, Minghua Deng
Intrinsic structure exploitation with dual alignment for universal visual recognition. Knowl. Based Syst. 300 (2024)
Yuyao Zhai, Liang Chen, Minghua Deng
scGAD: a new task and end-to-end framework for generalized cell type annotation and discovery. Briefings Bioinform. 24 (2) (2023)
Yuyao Zhai, Liang Chen, Minghua Deng
Realistic Cell Type Annotation and Discovery for Single-cell RNA-seq Data. IJCAI (2023)
Wei Ju, Xiao Luo, Meng Qu, Yifan Wang, Chong Chen, Minghua Deng, Xian-Sheng Hua, Ming Zhang
TGNN: A Joint Semi-supervised Framework for Graph-level Classification. CoRR (2023)
Xiao Luo, Haixin Wang, Daqing Wu, Chong Chen, Minghua Deng, Jianqiang Huang, Xian-Sheng Hua
A Survey on Deep Hashing Methods. ACM Trans. Knowl. Discov. Data 17 (1) (2023)
Musu Yuan, Liang Chen, Minghua Deng
Clustering single-cell multi-omics data with MoClust. Bioinform. 39 (1) (2023)
Yuyao Zhai, Liang Chen, Minghua Deng
Generalized Cell Type Annotation and Discovery for Single-Cell RNA-Seq Data. AAAI (2023)
Wei Ju, Xiao Luo, Zeyu Ma, Junwei Yang, Minghua Deng, Ming Zhang
GHNN: Graph Harmonic Neural Networks for semi-supervised graph-level classification. Neural Networks 151 (2022)
Musu Yuan, Liang Chen, Minghua Deng
scMRA: a robust deep learning method to annotate scRNA-seq data with multiple reference datasets. Bioinform. 38 (3) (2022)
Hui Wan, Liang Chen, Minghua Deng
scNAME: neighborhood contrastive clustering with ancillary mask estimation for scRNA-seq data. Bioinform. 38 (6) (2022)
Xiao Luo, Zeyu Ma, Wei Cheng, Minghua Deng
Improve Deep Unsupervised Hashing via Structural and Intrinsic Similarity Learning. IEEE Signal Process. Lett. 29 (2022)
Yan Wu, Lingfeng Xue, Wen Huang, Minghua Deng, Yihan Lin
Profiling transcription factor activity dynamics using intronic reads in time-series transcriptome data. PLoS Comput. Biol. 18 (1) (2022)
Liang Chen, Qianjin Du, Yihang Lou, Jianzhong He, Tao Bai, Minghua Deng
Mutual Nearest Neighbor Contrast and Hybrid Prototype Self-Training for Universal Domain Adaptation. AAAI (2022)
Liang Chen, Yihang Lou, Jianzhong He, Tao Bai, Minghua Deng
Evidential Neighborhood Contrastive Learning for Universal Domain Adaptation. AAAI (2022)
Liang Chen, Yihang Lou, Jianzhong He, Tao Bai, Minghua Deng
Geometric Anchor Correspondence Mining with Uncertainty Modeling for Universal Domain Adaptation. CVPR (2022)
Shengsen Wu, Liang Chen, Yihang Lou, Yan Bai, Tao Bai, Minghua Deng, Ling-Yu Duan
Neighborhood Consensus Contrastive Learning for Backward-Compatible Representation. AAAI (2022)
Wei Ju, Xiao Luo, Meng Qu, Yifan Wang, Chong Chen, Minghua Deng, Xian-Sheng Hua, Ming Zhang
TGNN: A Joint Semi-supervised Framework for Graph-level Classification. IJCAI (2022)
Liang Chen, Hui Wan, Qiuyan He, Shun He, Minghua Deng
Statistical Methods for Microbiome Compositional Data Network Inference: A Survey. J. Comput. Biol. 29 (7) (2022)
Xiao Luo, Wei Ju, Meng Qu, Chong Chen, Minghua Deng, Xian-Sheng Hua, Ming Zhang
DualGraph: Improving Semi-supervised Graph Classification via Dual Contrastive Learning. ICDE (2022)
Juan Xie, Shiwei Wang, Youjun Xu, Minghua Deng, Luhua Lai
Uncovering the Dominant Motion Modes of Allosteric Regulation Improves Allosteric Site Prediction. J. Chem. Inf. Model. 62 (1) (2022)
Zeyu Ma, Yuhang Guo, Xiao Luo, Chong Chen, Minghua Deng, Wei Cheng, Guangming Lu
DHWP: Learning High-Quality Short Hash Codes Via Weight Pruning. ICASSP (2022)
Shanshan Cheng, Jingjing Lyu, Xian Shi, Kai Wang, Zengmiao Wang, Minghua Deng, Baoluo Sun, Chaolong Wang
Rare variant association tests for ancestry-matched case-control data based on conditional logistic regression. Briefings Bioinform. 23 (2) (2022)
Zeyu Ma, Xiao Luo, Yingjie Chen, Mixiao Hou, Jinxing Li, Minghua Deng, Guangming Lu
Improved Deep Unsupervised Hashing with Fine-grained Semantic Similarity Mining for Multi-Label Image Retrieval. IJCAI (2022)
Hui Wan, Liang Chen, Minghua Deng
scEMAIL: Universal and Source-free Annotation Method for scRNA-seq Data with Novel Cell-type Perception. Genom. Proteom. Bioinform. 20 (5) (2022)
Huasong Zhong, Jianlong Wu, Chong Chen, Jianqiang Huang, Minghua Deng, Liqiang Nie, Zhouchen Lin, Xian-Sheng Hua
Graph Contrastive Clustering. CoRR (2021)
Liang Chen, Qiuyan He, Yuyao Zhai, Minghua Deng
Single-cell RNA-seq data semi-supervised clustering and annotation via structural regularized domain adaptation. Bioinform. 37 (6) (2021)
Weinan Wang, Yuhang Guo, Wei Ju, Xiao Luo, Minghua Deng
An Interpretation of Convolutional Neural Networks for Motif Finding from the View of Probability. ICTAI (2021)
Xiao Luo, Daqing Wu, Chong Chen, Jinwen Ma, Minghua Deng
Deep Unsupervised Hashing by Global and Local Consistency. ICME (2021)
Xiao Luo, Zeyu Ma, Daqing Wu, Huasong Zhong, Chong Chen, Jinwen Ma, Minghua Deng
Deep Unsupervised Hashing by Distilled Smooth Guidance. ICME (2021)
Xiao Luo, Zeyu Ma, Daqing Wu, Huasong Zhong, Chong Chen, Jinwen Ma, Minghua Deng
Deep Unsupervised Hashing by Distilled Smooth Guidance. CoRR (2021)
Huasong Zhong, Jianlong Wu, Chong Chen, Jianqiang Huang, Minghua Deng, Liqiang Nie, Zhouchen Lin, Xian-Sheng Hua
Graph Contrastive Clustering. ICCV (2021)
Daqing Wu, Xiao Luo, Zeyu Ma, Chong Chen, Pengfei Wang, Minghua Deng, Jinwen Ma
Composition-Enhanced Graph Collaborative Filtering for Multi-behavior Recommendation. ICDM (2021)
Daqing Wu, Xiao Luo, Zeyu Ma, Chong Chen, Minghua Deng, Jinwen Ma
ARGO: Modeling Heterogeneity in E-commerce Recommendation. IJCNN (2021)
Shengsen Wu, Liang Chen, Yihang Lou, Yan Bai, Tao Bai, Minghua Deng, Lingyu Duan
Neighborhood Consensus Contrastive Learning for Backward-Compatible Representation. CoRR (2021)
Daqing Wu, Xiao Luo, Zeyu Ma, Chong Chen, Minghua Deng, Jinwen Ma
ARGO: Modeling Heterogeneity in E-commerce Recommendation. CoRR (2021)
Xiao Luo, Daqing Wu, Zeyu Ma, Chong Chen, Minghua Deng, Jianqiang Huang, Xian-Sheng Hua
A Statistical Approach to Mining Semantic Similarity for Deep Unsupervised Hashing. ACM Multimedia (2021)
Yuhang Guo, Xiao Luo, Liang Chen, Minghua Deng
DNA-GCN: Graph Convolutional Networks for Predicting DNA-Protein Binding. ICIC (3) (2021)
Yuhang Guo, Xiao Luo, Liang Chen, Minghua Deng
DNA-GCN: Graph convolutional networks for predicting DNA-protein binding. CoRR (2021)
Daqing Wu, Xiao Luo, Xiangyang Guo, Chong Chen, Minghua Deng, Jinwen Ma
Concordant Contrastive Learning for Semi-supervised Node Classification on Graph. ICONIP (1) (2021)
Xiao Luo, Daqing Wu, Zeyu Ma, Chong Chen, Minghua Deng, Jinwen Ma, Zhongming Jin, Jianqiang Huang, Xian-Sheng Hua
CIMON: Towards High-quality Hash Codes. IJCAI (2021)
Xiao Luo, Daqing Wu, Chong Chen, Jinwen Ma, Minghua Deng, Chen Shen, Jianqiang Huang, Xian-Sheng Hua
Criterion-based Heterogeneous Collaborative Filtering for Multi-behavior Implicit Recommendation. CoRR (2021)
Xiao Luo, Yuhang Guo, Zeyu Ma, Huasong Zhong, Tao Li, Wei Ju, Chong Chen, Minghua Deng
Deep Supervised Hashing by Classification for Image Retrieval. ICONIP (4) (2021)
Minghua Deng, Jianfeng Feng, Hong Qian, Lin Wan, Fengzhu Sun
International Workshop on Applications of Probability and Statistics to Biology, July 11-13, 2019. Quant. Biol. 8 (2) (2020)
Xiao Luo, Chong Chen, Huasong Zhong, Hao Zhang, Minghua Deng, Jianqiang Huang, Xiansheng Hua
A Survey on Deep Hashing Methods. CoRR (2020)
Xiao Luo, Xinming Tu, Yang Ding, Ge Gao, Minghua Deng
Expectation pooling: an effective and interpretable pooling method for predicting DNA-protein binding. Bioinform. 36 (5) (2020)
Chong Chen, Changjing Wu, Linjie Wu, Xiaochen Wang, Minghua Deng, Ruibin Xi
scRMD: imputation for single cell RNA-seq data via robust matrix decomposition. Bioinform. 36 (10) (2020)
Liang Chen, Shun He, Yuyao Zhai, Minghua Deng
Direct interaction network inference for compositional data via codaloss. J. Bioinform. Comput. Biol. 18 (6) (2020)
Xiao Luo, Daqing Wu, Zeyu Ma, Chong Chen, Huasong Zhong, Minghua Deng, Jianqiang Huang, Xian-Sheng Hua
CIMON: Towards High-quality Hash Codes. CoRR (2020)
Yishu Wang, Huaying Fang, Dejie Yang, Hongyu Zhao, Minghua Deng
Network Clustering Analysis Using Mixture Exponential-Family Random Graph Models and Its Application in Genetic Interaction Data. IEEE ACM Trans. Comput. Biol. Bioinform. 16 (5) (2019)
Haicang Zhang, Qi Zhang, Fusong Ju, Jianwei Zhu, Yujuan Gao, Ziwei Xie, Minghua Deng, Shiwei Sun, Wei-Mou Zheng, Dongbo Bu
Correction to: Predicting protein inter-residue contacts using composite likelihood maximization and deep learning. BMC Bioinform. 20 (1) (2019)
Huili Yuan, Shun He, Minghua Deng
Compositional data network analysis via lasso penalized D-trace loss. Bioinform. 35 (18) (2019)
Haicang Zhang, Qi Zhang, Fusong Ju, Jianwei Zhu, Yujuan Gao, Ziwei Xie, Minghua Deng, Shiwei Sun, Wei-Mou Zheng, Dongbo Bu
Predicting protein inter-residue contacts using composite likelihood maximization and deep learning. BMC Bioinform. 20 (1) (2019)
Haicang Zhang, Qi Zhang, Fusong Ju, Jianwei Zhu, Shiwei Sun, Yujuan Gao, Ziwei Xie, Minghua Deng, Shiwei Sun, Wei-Mou Zheng, Dongbo Bu
Predicting protein inter-residue contacts using composite likelihood maximization and deep learning. CoRR (2018)
Yujuan Gao, Sheng Wang, Minghua Deng, Jinbo Xu
RaptorX-Angle: real-value prediction of protein backbone dihedral angles through a hybrid method of clustering and deep learning. BMC Bioinform. (4) (2018)
Yuchao Xia, Yun Liu, Minghua Deng, Ruibin Xi
SVmine improves structural variation detection by integrative mining of predictions from multiple algorithms. Bioinform. 33 (21) (2017)
Huaying Fang, Chengcheng Huang, Hongyu Zhao, Minghua Deng
gCoda: Conditional Dependence Network Inference for Compositional Data. J. Comput. Biol. 24 (7) (2017)
Yuchao Xia, Yun Liu, Minghua Deng, Ruibin Xi
Pysim-sv: a package for simulating structural variation data with GC-biases. BMC Bioinform. 18 (S-3) (2017)
Zengmiao Wang, Huaying Fang, Nelson L. S. Tang, Minghua Deng
VCNet: vector-based gene co-expression network construction and its application to RNA-seq data. Bioinform. 33 (14) (2017)
Huili Yuan, Zhenye Li, Nelson L. S. Tang, Minghua Deng
A network based covariance test for detecting multivariate eQTL in saccharomyces cerevisiae. BMC Syst. Biol. 10 (S-1) (2016)
Jie Ren, Kai Song, Minghua Deng, Gesine Reinert, Charles H. Cannon, Fengzhu Sun
Inference of Markovian properties of molecular sequences from NGS data and applications to comparative genomics. Bioinform. 32 (7) (2016)
Zengmiao Wang, Jun Wang, Changjing Wu, Minghua Deng
Estimation of isoform expression in RNA-seq data using a hierarchical Bayesian model. J. Bioinform. Comput. Biol. 13 (6) (2015)
Huaying Fang, Chengcheng Huang, Hongyu Zhao, Minghua Deng
CCLasso: correlation inference for compositional data through Lasso. Bioinform. 31 (19) (2015)
Kai Song, Jie Ren, Gesine Reinert, Minghua Deng, Michael S. Waterman, Fengzhu Sun
New developments of alignment-free sequence comparison: measures, statistics and next-generation sequencing. Briefings Bioinform. 15 (3) (2014)
Kai Song, Jie Ren, Zhiyuan Zhai, Xuemei Liu, Minghua Deng, Fengzhu Sun
Alignment-Free Sequence Comparison Based on Next-Generation Sequencing Reads. J. Comput. Biol. 20 (2) (2013)
Jie Ren, Kai Song, Fengzhu Sun, Minghua Deng, Gesine Reinert
Multiple alignment-free sequence comparison. Bioinform. 29 (21) (2013)
Kai Song, Jie Ren, Zhiyuan Zhai, Xuemei Liu, Minghua Deng, Fengzhu Sun
Alignment-Free Sequence Comparison Based on Next Generation Sequencing Reads: Extended Abstract. RECOMB (2012)
Yiming Lu, Yang Zhou, Wubin Qu, Minghua Deng, Chenggang Zhang
A Lasso regression model for the construction of microRNA-target regulatory networks. Bioinform. 27 (17) (2011)
Lin Wang, Lin Hou, Minping Qian, Fangting Li, Minghua Deng
Integrating multiple types of data to predict novel cell cycle-related genes. BMC Syst. Biol. 5 (S-1) (2011)
Lin Hou, Lin Wang, Minping Qian, Dong Li, Chao Tang, Yunping Zhu, Minghua Deng, Fangting Li
Modular analysis of the probabilistic genetic interaction network. Bioinform. 27 (6) (2011)
Dengguo Wei, Hao Zheng, Naifang Su, Minghua Deng, Luhua Lai
Binding Energy Landscape Analysis Helps to Discriminate True Hits from High-Scoring Decoys in Virtual Screening. J. Chem. Inf. Model. 50 (10) (2010)
Quan Wang, Linbo Wang, Minping Qian, Minghua Deng
A hybridization model for tiling array analysis. BIBM Workshops (2010)
Naifang Su, Yufu Wang, Minping Qian, Minghua Deng
Combinatorial regulation of transcription factors and microRNAs. BMC Syst. Biol. 4 (2010)
Quan Chen, Minghua Deng, Minping Qian, Lin Wan, Yi Xiao
The Biases of Copy Numbers from Affymetrix SNP Arrays and Their Corrections. Commun. Inf. Syst. 10 (2) (2010)
Fugui Wang, Lin Hou, Jiangfeng Xu, Minping Qian, Minghua Deng
A Robust Empirical Bayesian Method for Detecting Differentially Expressed Genes. BMEI (2009)
Hao Zheng, Fugui Wang, Jiangfeng Xu, Nengfeng Zhou, Minping Qian, Ji Zhu, Minghua Deng
Pathway Detection Based on Hierarchical LASSO Regression Model. BMEI (2009)
Quan Wang, Lin Wan, Dayong Li, Lihuang Zhu, Minping Qian, Minghua Deng
. BMC Bioinform. 10 (S-1) (2009)
Wei Wei, Lin Wan, Minping Qian, Minghua Deng
The Implementation and Application of the Microarray Preprocessing Generalized PDNN Model. BMEI (2009)
Hao Zheng, Xingyi Hang, Ji Zhu, Minping Qian, Wubin Qu, Chenggang Zhang, Minghua Deng
REMAS: a new regression model to identify alternative splicing events from exon array data. BMC Bioinform. 10 (S-1) (2009)
Jingwei Liu, Minghua Deng, Minping Qian
Feature-Based Causal Structure Discovery in Protein and Gene Expression Data with Bayesian Network. ICNC (2) (2009)
Wenjiang J. Fu, Ming Li, Lin Wan, Minghua Deng, Minping Qian
On Design of Oligonucleotide SNP Arrays and Methods for Genotype Calling. BMEI (1) (2008)
Lin Wan, Wenjiang J. Fu, Minghua Deng, Minping Qian
A Method to Correct Systematic Bias in Affymetrix SNP Arrays. BMEI (1) (2008)
Yuping Zhang, Huan Yu, Minghua Deng, Minping Qian
Nonequilibrium Model for Yeast Cell Cycle. ICIC (3) (2006)
Huan Yu, Minping Qian, Minghua Deng
Using a Stochastic AdaBoost Algorithm to Discover Interactome Motif Pairs from Sequences. ICIC (3) (2006)
Hyunju Lee, Minghua Deng, Fengzhu Sun, Ting Chen
An integrated approach to the prediction of domain-domain interactions. BMC Bioinform. 7 (2006)
Minghua Deng, Zhidong Tu, Fengzhu Sun, Ting Chen
Mapping gene ontology to proteins based on protein-protein interaction data. Bioinform. 20 (6) (2004)
Minghua Deng, Ting Chen, Fengzhu Sun
An Integrated Probabilistic Model for Functional Prediction of Proteins. J. Comput. Biol. 11 (2/3) (2004)
Shenglan Peng, Minghua Deng, Minping Qian
An Improvement for Eulerian Path of Assembly. SNPD (2004)
Gert R. G. Lanckriet, Minghua Deng, Nello Cristianini, Michael I. Jordan, William Stafford Noble
Kernel-Based Data Fusion and Its Application to Protein Function Prediction in Yeast. Pacific Symposium on Biocomputing (2004)
Minghua Deng, Ting Chen, Fengzhu Sun
An integrated probabilistic model for functional prediction of proteins. RECOMB (2003)
Minghua Deng, Fengzhu Sun, Ting Chen
Assessment of the reliability of protein-protein interactions and protein function prediction. Pacific Symposium on Biocomputing (2003)
Minghua Deng, Kui Zhang, Shipra Mehta, Ting Chen, Fengzhu Sun
Prediction of Protein Function Using Protein-Protein Interaction Data. J. Comput. Biol. 10 (6) (2003)
Minghua Deng, Shipra Mehta, Fengzhu Sun, Ting Chen
Inferring domain-domain interactions from protein-protein interactions. RECOMB (2002)
Minghua Deng, Kui Zhang, Shipra Mehta, Ting Chen, Fengzhu Sun
Prediction of Protein Function Using Protein-Protein Interaction Data. CSB (2002)
Feng Qi, Minghua Deng, Minping Qian, Xueqing Zhu
A Novel Algorithm for Handwritten Chinese Character Recognition. ICMI (2000)