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2020 – today
- 2024
[j51]Zhen Gao
, Yansen Su, Junfeng Xia, Rui-Fen Cao, Yun Ding, Chun-Hou Zheng, Pi-Jing Wei:
DeepFGRN: inference of gene regulatory network with regulation type based on directed graph embedding. Briefings Bioinform. 25(3) (2024)- [j50]Zile Wang, Hai-Yun Wang, Jianping Zhao, Junfeng Xia, Chun-Hou Zheng:
scVSC: Deep Variational Subspace Clustering for Single-Cell Transcriptome Data. IEEE ACM Trans. Comput. Biol. Bioinform. 21(5): 1492-1503 (2024) - [j49]Senhua Zhang, Jianting Zhou, Junfeng Xia, Hong Zhang, Zhenfeng He, Kemeng Hu, Leng Liao:
Evaluation of Time-Varying Stress in Prestressed Tendons Based on the Resonance-Enhanced Magnetoelastic Method. IEEE Trans. Instrum. Meas. 73: 1-10 (2024) - [j48]Na Cheng, Chuanmei Bi, Yong Shi, Mengya Liu, Anqi Cao, Mengkun Ren, Junfeng Xia, Zhen Liang:
Effect Predictor of Driver Synonymous Mutations Based on Multi-Feature Fusion and Iterative Feature Representation Learning. IEEE J. Biomed. Health Informatics 28(2): 1144-1151 (2024) - [j47]Dayu Tan, Rui Hao, Xiaoping Zhou, Junfeng Xia, Yansen Su, Chun-Hou Zheng:
A Novel Skip-Connection Strategy by Fusing Spatial and Channel Wise Features for Multi-Region Medical Image Segmentation. IEEE J. Biomed. Health Informatics 28(9): 5396-5409 (2024) - [i2]Youzhi Qu, Junfeng Xia, Xinyao Jian, Wendu Li, Kaining Peng, Zhichao Liang, Haiyan Wu, Quanying Liu:
Uncovering cognitive taskonomy through transfer learning in masked autoencoder-based fMRI reconstruction. CoRR abs/2407.00033 (2024) - [i1]Haoyuan Shi, Tao Xu, Xiaodi Li, Qian Gao, Junfeng Xia, Zhenyu Yue:
DRExplainer: Quantifiable Interpretability in Drug Response Prediction with Directed Graph Convolutional Network. CoRR abs/2408.12139 (2024) - 2023
- [j46]Jing Wang, Junfeng Xia, Haiyun Wang, Yansen Su, Chun-Hou Zheng:
scDCCA: deep contrastive clustering for single-cell RNA-seq data based on auto-encoder network. Briefings Bioinform. 24(1) (2023) - [j45]Lihua Wang, Tao Zhang, Lihong Yu, Chun-Hou Zheng, Wenguang Yin, Junfeng Xia, Tiejun Zhang:
Deleterious synonymous mutation identification based on selective ensemble strategy. Briefings Bioinform. 24(1) (2023) - [j44]Jiawei Wu, Qingrui Liu, Min Li, Jiliang Xu, Chen Wang, Junyin Zhang, Minfeng Xiao, Yannan Bin, Junfeng Xia:
PhaGAA: an integrated web server platform for phage genome annotation and analysis. Bioinform. 39(3) (2023) - [j43]Huadong Wang, Jianhui Sun, Mengya Liu, Chun-Hou Zheng, Junfeng Xia, Na Cheng:
frDSM: An Ensemble Predictor With Effective Feature Representation for Deleterious Synonymous Mutation in Human Genome. IEEE ACM Trans. Comput. Biol. Bioinform. 20(1): 371-377 (2023) - [j42]Zhen Gao, Jin Tang, Junfeng Xia, Chun-Hou Zheng, Pi-Jing Wei:
CNNGRN: A Convolutional Neural Network-Based Method for Gene Regulatory Network Inference From Bulk Time-Series Expression Data. IEEE ACM Trans. Comput. Biol. Bioinform. 20(5): 2853-2861 (2023) - 2022
- [j41]Wending Tang, Ruyu Dai, Wenhui Yan, Wei Zhang, Yannan Bin, En-Hua Xia, Junfeng Xia:
Identifying multi-functional bioactive peptide functions using multi-label deep learning. Briefings Bioinform. 23(1) (2022) - [j40]Jing Wang, Junfeng Xia, Dayu Tan, Rongxin Lin, Yansen Su, Chun-Hou Zheng:
scHFC: a hybrid fuzzy clustering method for single-cell RNA-seq data optimized by natural computation. Briefings Bioinform. 23(2) (2022) - [j39]Xiaoyan Li, Shunshuai Ma, Wenhui Yan, Yong Wu, Hui Kong, Mingshan Zhang, Xiongjian Luo, Junfeng Xia:
dbBIP: a comprehensive bipolar disorder database for genetic research. Database J. Biol. Databases Curation 2022(2022) (2022) - [j38]Wenhui Yan, Wending Tang, Lihua Wang, Yannan Bin, Junfeng Xia:
PrMFTP: Multi-functional therapeutic peptides prediction based on multi-head self-attention mechanism and class weight optimization. PLoS Comput. Biol. 18(9): 1010511 (2022) - [j37]Qing-Wen Wu, Rui-Fen Cao, Jun-Feng Xia, Jian-Cheng Ni, Chunhou Zheng, Yan-Sen Su:
Extra Trees Method for Predicting LncRNA-Disease Association Based On Multi-Layer Graph Embedding Aggregation. IEEE ACM Trans. Comput. Biol. Bioinform. 19(6): 3171-3178 (2022) - [j36]Na Cheng, Huadong Wang, Xi Tang, Tao Zhang, Jie Gui, Chun-Hou Zheng, Junfeng Xia:
An Ensemble Framework for Improving the Prediction of Deleterious Synonymous Mutation. IEEE Trans. Circuits Syst. Video Technol. 32(5): 2603-2611 (2022) - [j35]Chen Wang, Junyin Zhang, Li Cheng, Jiawei Wu, Minfeng Xiao, Junfeng Xia, Yannan Bin:
DPProm: A Two-Layer Predictor for Identifying Promoters and Their Types on Phage Genome Using Deep Learning. IEEE J. Biomed. Health Informatics 26(10): 5258-5266 (2022) - [c24]Chao Dong, Jie Liu, Wenhui Yan, Mengmeng Han, Lijun Wu, Junfeng Xia, Yannan Bin:
An Ensemble Framework Integrating Whole Slide Pathological Images and miRNA Data to Predict Radiosensitivity of Breast Cancer Patients. ICIC (2) 2022: 757-766 - 2021
- [j34]Zhenyu Yue, Xinlu Chu, Junfeng Xia:
PredCID: prediction of driver frameshift indels in human cancer. Briefings Bioinform. 22(3) (2021) - [j33]Xi Tang, Tao Zhang, Na Cheng, Huadong Wang, Chun-Hou Zheng, Junfeng Xia, Tiejun Zhang:
usDSM: a novel method for deleterious synonymous mutation prediction using undersampling scheme. Briefings Bioinform. 22(5) (2021) - [j32]Qing-Wen Wu, Jun-Feng Xia, Jian-Cheng Ni, Chun-Hou Zheng:
GAERF: predicting lncRNA-disease associations by graph auto-encoder and random forest. Briefings Bioinform. 22(5) (2021) - [j31]Xi Tang, Tao Zhang, Na Cheng, Huadong Wang, Chun-Hou Zheng, Junfeng Xia, Tiejun Zhang:
Erratum: usDSM: a novel method for deleterious synonymous mutation prediction using undersampling scheme. Briefings Bioinform. 22(6) (2021) - [j30]Zong-Lan Zuo, Rui-Fen Cao, Pi-Jing Wei, Jun-Feng Xia, Chun-Hou Zheng:
Double matrix completion for circRNA-disease association prediction. BMC Bioinform. 22(1): 307 (2021) - [j29]Sijia Zhang, Lihua Wang, Le Zhao, Menglu Li, Mengya Liu, Ke Li, Yannan Bin, Junfeng Xia:
An improved DNA-binding hot spot residues prediction method by exploring interfacial neighbor properties. BMC Bioinform. 22-S(3): 253 (2021) - [j28]Yun-Yun Tang, Pi-Jing Wei, Jian-ping Zhao, Junfeng Xia, Rui-Fen Cao, Chun-Hou Zheng:
Identification of driver genes based on gene mutational effects and network centrality. BMC Bioinform. 22-S(3): 457 (2021) - [j27]Ruyu Dai, Wei Zhang, Wending Tang, Evelien Wynendaele, Qizhi Zhu, Yannan Bin, Bart De Spiegeleer, Junfeng Xia:
BBPpred: Sequence-Based Prediction of Blood-Brain Barrier Peptides with Feature Representation Learning and Logistic Regression. J. Chem. Inf. Model. 61(1): 525-534 (2021) - [j26]Menglu Li, Yanan Wang, Fuyi Li, Yun Zhao, Mengya Liu, Sijia Zhang, Yannan Bin, Alexander Ian Smith, Geoffrey I. Webb, Jian Li, Jiangning Song, Junfeng Xia:
A Deep Learning-Based Method for Identification of Bacteriophage-Host Interaction. IEEE ACM Trans. Comput. Biol. Bioinform. 18(5): 1801-1810 (2021) - 2020
- [j25]Zhenyu Yue, Le Zhao, Junfeng Xia:
dbCPM: a manually curated database for exploring the cancer passenger mutations. Briefings Bioinform. 21(1): 309-317 (2020) - [j24]Na Cheng, Menglu Li, Le Zhao, Bo Zhang, Yuhua Yang, Chun-Hou Zheng, Junfeng Xia:
Comparison and integration of computational methods for deleterious synonymous mutation prediction. Briefings Bioinform. 21(3): 970-981 (2020) - [j23]Sijia Zhang, Le Zhao, Chun-Hou Zheng, Junfeng Xia:
A feature-based approach to predict hot spots in protein-DNA binding interfaces. Briefings Bioinform. 21(3): 1038-1046 (2020) - [j22]Ke Li, Sijia Zhang, Di Yan, Yannan Bin, Junfeng Xia:
Prediction of hot spots in protein-DNA binding interfaces based on supervised isometric feature mapping and extreme gradient boosting. BMC Bioinform. 21-S(13): 381 (2020) - [c23]Xi Tang, Menglu Li, Wei Zhang, Junfeng Xia:
Predicting lncRNA-disease Association based on Extreme Gradient Boosting. ICBBB 2020: 69-73
2010 – 2019
- 2019
- [j21]Sijia Zhang, Le Zhao, Junfeng Xia:
SPHot: Prediction of Hot Spots in Protein-RNA Complexes by Protein Sequence Information and Ensemble Classifier. IEEE Access 7: 104941-104946 (2019) - [j20]Yannan Bin, Qizhi Zhu, Menglu Li, Junfeng Xia:
Comprehensive Analysis of Alzheimer's Disease Biologically Candidate Causal Genes Revealed by Function Association Study With GWAS. IEEE Access 7: 114236-114245 (2019) - [j19]Zhenyu Yue, Le Zhao, Na Cheng, Hua Yan, Junfeng Xia:
dbCID: a manually curated resource for exploring the driver indels in human cancer. Briefings Bioinform. 20(5): 1925-1933 (2019) - [j18]Paolo Romano, Arnaud Céol, Andreas Dräger, Antonino Fiannaca, Rosalba Giugno, Massimo La Rosa, Luciano Milanesi, Ulrich Pfeffer, Riccardo Rizzo, Soo-Yong Shin, Junfeng Xia, Alfonso Urso:
The 2017 Network Tools and Applications in Biology (NETTAB) workshop: aims, topics and outcomes. BMC Bioinform. 20-S(4): 125:1-125:9 (2019) - [c22]Xin Ding, Jun-Feng Xia, Yutian Wang, Jing Wang, Chun-Hou Zheng:
Improved Inductive Matrix Completion Method for Predicting MicroRNA-Disease Associations. ICIC (2) 2019: 247-255 - [c21]Ying Hui, Pi-Jing Wei, Jun-Feng Xia, Hong-Bo Wang, Jing Wang, Chun-Hou Zheng:
Discovering Driver Mutation Profiles in Cancer with a Local Centrality Score. ICIC (2) 2019: 272-282 - [c20]Le Zhao, Sijia Zhang, Junfeng Xia:
Sequence-Based Prediction of Hot Spots in Protein-RNA Complexes Using an Ensemble Approach. ICIC (1) 2019: 575-582 - [r1]Zhongming Zhao, Junfeng Xia:
Computational Approaches for Modeling Signal Transduction Networks. Encyclopedia of Bioinformatics and Computational Biology (2) 2019: 856-863 - 2018
- [j17]Pengbo Wen, Junfeng Xia, Xianbin Cao, Bin Chen, Yinping Tao, Lijun Wu, An Xu, Guoping Zhao:
dbCRSR: a manually curated database for regulation of cancer radiosensitivity. Database J. Biol. Databases Curation 2018: bay049 (2018) - [c19]Yannan Bin, Xiaojuan Wang, Qizhi Zhu, Pengbo Wen, Junfeng Xia:
Nucleotide-Based Significance of Somatic Synonymous Mutations for Pan-Cancer. ICIC (2) 2018: 401-406 - [c18]Haiyang Sun, Zhenyu Yue, Le Zhao, Junfeng Xia, Yannan Bin, Di Zhang:
Computational Prediction of Driver Missense Mutations in Melanoma. ICIC (2) 2018: 438-447 - [c17]Yannan Bin, Ling Shu, Qizhi Zhu, Huanhuan Zhu, Junfeng Xia:
Further Evidence for Role of Promoter Polymorphisms in TNF Gene in Alzheimer's Disease. ICIC (2) 2018: 448-459 - 2017
- [j16]Pi-Jing Wei, Di Zhang, Haitao Li, Junfeng Xia, Chun-Hou Zheng:
DriverFinder: A Gene Length-Based Network Method to Identify Cancer Driver Genes. Complex. 2017: 4826206:1-4826206:10 (2017) - [j15]Shu-Guang Ge, Junfeng Xia, Wen Sha, Chun-Hou Zheng:
Cancer Subtype Discovery Based on Integrative Model of Multigenomic Data. IEEE ACM Trans. Comput. Biol. Bioinform. 14(5): 1115-1121 (2017) - [c16]Xiaojuan Wang, Hua Yan, Di Zhang, Le Zhao, Yannan Bin, Junfeng Xia:
Investigating Alzheimer's Disease Candidate Genes Based on Combined Network Using Subnetwork Extraction Algorithms. ICIC (2) 2017: 559-565 - 2016
- [j14]Pengbo Wen, Peng Xiao, Junfeng Xia:
dbDSM: a manually curated database for deleterious synonymous mutations. Bioinform. 32(12): 1914-1916 (2016) - [j13]Junliang Shang, Yingxia Sun, Jin-Xing Liu, Junfeng Xia, Junying Zhang, Chun-Hou Zheng:
CINOEDV: a co-information based method for detecting and visualizing n-order epistatic interactions. BMC Bioinform. 17: 214 (2016) - [j12]Pi-Jing Wei, Di Zhang, Junfeng Xia, Chun-Hou Zheng:
LNDriver: identifying driver genes by integrating mutation and expression data based on gene-gene interaction network. BMC Bioinform. 17(S-17): 221-230 (2016) - [j11]Chun-Hou Zheng, Wu Yang, Yanwen Chong, Junfeng Xia:
Identification of mutated driver pathways in cancer using a multi-objective optimization model. Comput. Biol. Medicine 72: 22-29 (2016) - [j10]Peng Chen, ShanShan Hu, Jun Zhang, Xin Gao, Jinyan Li, Junfeng Xia, Bing Wang:
A Sequence-Based Dynamic Ensemble Learning System for Protein Ligand-Binding Site Prediction. IEEE ACM Trans. Comput. Biol. Bioinform. 13(5): 901-912 (2016) - [c15]Pi-Jing Wei, Di Zhang, Chun-Hou Zheng, Junfeng Xia:
Cancer genes discovery based on integtating transcriptomic data and the impact of gene length. BIBM 2016: 1265-1268 - [c14]Shu-Guang Ge, Junfeng Xia, Pi-Jing Wei, Chun-Hou Zheng:
Srrr-cluster: Using Sparse Reduced-Rank Regression to Optimize iCluster. ICIC (3) 2016: 99-106 - 2015
- [j9]Di Zhang, Rongrong Zhu, Hanqian Zhang, Chun-Hou Zheng, Junfeng Xia:
MGDB: a comprehensive database of genes involved in melanoma. Database J. Biol. Databases Curation 2015 (2015) - [j8]Chengjun Xie, Jie Zhang, Rui Li, Jinyan Li, Peilin Hong, Junfeng Xia, Peng Chen:
Automatic classification for field crop insects via multiple-task sparse representation and multiple-kernel learning. Comput. Electron. Agric. 119: 123-132 (2015) - [c13]Di Zhang, Qingbao Wang, Rongrong Zhu, Haitao Li, Chun-Hou Zheng, Junfeng Xia:
Discovery of Ovarian Cancer Candidate Genes Using Protein Interaction Information. ICIC (2) 2015: 467-472 - [c12]Zhenyu Yue, Yan Chen, Junfeng Xia:
Prediction of Clinical Drug Response Based on Differential Gene Expression Levels. ICIC (2) 2015: 480-488 - [c11]Wu Yang, Junfeng Xia, Yan Zhang, Chun-Hou Zheng:
Multi-objective Optimization Method for Identifying Mutated Driver Pathways in Cancer. ICIC (2) 2015: 570-576 - [c10]Ran Wei, Haitao Li, Yanjun Wang, Chun-Hou Zheng, Junfeng Xia:
Identification of Colorectal Cancer Candidate Genes Based on Subnetwork Extraction Algorithm. ICIC (3) 2015: 706-712 - 2014
- [c9]Fen Ye, Junfeng Xia, Yanwen Chong, Yan Zhang, Chun-Hou Zheng:
Tumor Clustering Using Independent Component Analysis and Adaptive Affinity Propagation. ICIC (3) 2014: 34-40 - [c8]Di Zhang, Junfeng Xia:
Potential Driver Genes Regulated by OncomiRNA Are Associated with Druggability in Pan-Negative Melanoma. ICIC (3) 2014: 315-321 - [c7]Yun-Qiang Di, Changchang Wang, Huan Wu, Xinxin Yu, Junfeng Xia:
Comparative Assessment of Data Sets of Protein Interaction Hot Spots Used in the Computational Method. ICIC (3) 2014: 478-486 - 2013
- [j7]Qingguo Wang, Junfeng Xia, Peilin Jia, William Pao, Zhongming Zhao:
Application of next generation sequencing to human gene fusion detection: computational tools, features and perspectives. Briefings Bioinform. 14(4): 506-519 (2013) - [j6]Morgan Harrell, Junfeng Xia, Zhongming Zhao:
Network analysis of gene fusions in human cancer. BMC Bioinform. 14(S-17): A13 (2013) - [j5]Zhu-Hong You, Ying-Ke Lei, Lin Zhu, Junfeng Xia, Bing Wang:
Prediction of protein-protein interactions from amino acid sequences with ensemble extreme learning machines and principal component analysis. BMC Bioinform. 14(S-8): S10 (2013) - [c6]Lin Yuan, Wen Sha, Jun Zhang, Chun-Hou Zheng, Junfeng Xia:
Differential coexpression analysis in gene modules level and its application to type 2 diabetes. BIBM 2013: 193-196 - [c5]Huan Wu, Yun-Qiang Di, Chun-Hou Zheng, Junfeng Xia:
Prediction of cytochrome P450 inhibition using ensemble of extreme learning machine. BIBM 2013: 342-344 - 2011
- [j4]Junfeng Xia, Jingchun Sun, Peilin Jia, Zhongming Zhao:
Do cancer proteins really interact strongly in the human protein-protein interaction network? Comput. Biol. Chem. 35(3): 121-125 (2011) - [j3]Zhongming Zhao, Junfeng Xia, Öznur Tastan, Irtisha Singh, Meghana Kshirsagar, Jaime G. Carbonell, Judith Klein-Seetharaman:
Virus interactions with human signal transduction pathways. Int. J. Comput. Biol. Drug Des. 4(1): 83-105 (2011) - [c4]Zhixi Su, Junfeng Xia, Zhongming Zhao:
Do MicroRNAs Preferentially Target the Genes with Low DNA Methylation Level at the Promoter Region? ICIC (3) 2011: 253-258 - 2010
- [j2]Junfeng Xia, Xing-Ming Zhao, Jiangning Song, De-Shuang Huang:
APIS: accurate prediction of hot spots in protein interfaces by combining protrusion index with solvent accessibility. BMC Bioinform. 11: 174 (2010) - [j1]Shulin Wang, Xueling Li, Junfeng Xia, Xiao-Ping Zhang:
Weighted Neighborhood Classifier for the Classification of Imbalanced Tumor Dataset. J. Circuits Syst. Comput. 19(1): 259-273 (2010) - [c3]Xiao-Ming Ren, Jun-Feng Xia:
Prediction of Protein-Protein Interaction Sites by Using Autocorrelation Descriptor and Support Vector Machine. ICIC (2) 2010: 76-82
2000 – 2009
- 2009
- [c2]Ying-Ke Lei, Junfeng Xia:
A New Source and Receiver Localization Method with Erroneous Receiver Positions. ICIC (2) 2009: 55-63 - 2007
- [c1]Junfeng Xia, Bing Wang, De-Shuang Huang:
Inferring Strengths of Protein-Protein Interaction Using Artificial Neural Network. IJCNN 2007: 2471-2475
Coauthor Index
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