Guishen Wang (Quan Zou)

Publication Activity (10 Years)

Years Active: 2016-2023
Publications (10 Years): 64

Top Topics

Machine Learning

Top Venues

International journal of molecular sciences

Briefings in bioinformatics

Bioinformatics (Oxford, England)

PLoS computational biology

This page only lists publications with an associated author ORCID identifier.

Publications

Zixuan Wang, Yongqing Zhang, Yun Yu, Junming Zhang, Yuhang Liu, Guishen Wang
A Unified Deep Learning Framework for Single-Cell ATAC-Seq Analysis Based on ProdDep Transformer Encoder. International journal of molecular sciences 24 (5) (2023)
Yongqing Zhang, Maocheng Wang, Zixuan Wang, Yuhang Liu, Shuwen Xiong, Guishen Wang
MetaSEM: Gene Regulatory Network Inference from Single-Cell RNA Data by Meta-Learning. International journal of molecular sciences 24 (3) (2023)
Liangjie Sun, Yushan Qiu, Wai-Ki Ching, Pu Zhao, Guishen Wang
PCB: A pseudotemporal causality-based Bayesian approach to identify EMT-associated regulatory relationships of AS events and RBPs during breast cancer progression. PLoS computational biology 19 (3) (2023)
Yongqing Zhang, Maocheng Wang, Zixuan Wang, Yuhang Liu, Shuwen Xiong, Guishen Wang
MetaSEM: Gene Regulatory Network Inference from Single-Cell RNA Data by Meta-Learning. International journal of molecular sciences 24 (3) (2023)
Changjiang Li, Guishen Wang, Cangzhi Jia, Jia Zheng
AMPpred-MFA: An Interpretable Antimicrobial Peptide Predictor with a Stacking Architecture, Multiple Features, and Multihead Attention. Journal of chemical information and modeling (2023)
Zixuan Wang, Yongqing Zhang, Yun Yu, Junming Zhang, Yuhang Liu, Guishen Wang
A Unified Deep Learning Framework for Single-Cell ATAC-Seq Analysis Based on ProdDep Transformer Encoder. International journal of molecular sciences 24 (5) (2023)
Chen Cao, Mengting Shao, Chunman Zuo, Devin Kwok, Lin Liu, Yuli Ge, Zilong Zhang, Feifei Cui, Mingshuai Chen, Rui Fan, Hangjin Jiang, Hangjin Jiang, Guishen Wang, Quan Zou
RAVAR: a curated repository for rare variant-trait associations. Nucleic acids research (2023)
Jiacheng Wang, Yaojia Chen, Guishen Wang
Inferring gene regulatory network from single-cell transcriptomes with graph autoencoder model. PLoS genetics 19 (9) (2023)
Ren Qi, Guishen Wang
Special Protein or RNA Molecules Computational Identification. International journal of molecular sciences 24 (14) (2023)
Ting He, Zhipeng Gao, Ling Lin, Xu Zhang, Guishen Wang
Prognostic signature analysis and survival prediction of esophageal cancer based on N6-methyladenosine associated lncRNAs. Briefings in functional genomics (2023)
Ali Raza, Jamal Uddin, Abdullah Almuhaimeed, Shahid Akbar, Guishen Wang, Ashfaq Ahmad
AIPs-SnTCN: Predicting Anti-Inflammatory Peptides Using fastText and Transformer Encoder-Based Hybrid Word Embedding with Self-Normalized Temporal Convolutional Networks. Journal of chemical information and modeling (2023)
Ximei Luo, Yansu Wang, Guishen Wang, Lei Xu
Recall DNA methylation levels at low coverage sites using a CNN model in WGBS. PLoS computational biology 19 (6) (2023)
Zixuan Wang, Yongqing Zhang, Yun Yu, Junming Zhang, Yuhang Liu, Guishen Wang
A Unified Deep Learning Framework for Single-Cell ATAC-Seq Analysis Based on ProdDep Transformer Encoder. International journal of molecular sciences 24 (5) (2023)
Yongqing Zhang, Maocheng Wang, Zixuan Wang, Yuhang Liu, Shuwen Xiong, Guishen Wang
MetaSEM: Gene Regulatory Network Inference from Single-Cell RNA Data by Meta-Learning. International journal of molecular sciences 24 (3) (2023)
Jiacheng Wang, Yaojia Chen, Guishen Wang
Comparative Genomics and Functional Genomics Analysis in Plants. International journal of molecular sciences 24 (7) (2023)
Chao Pang, Jianbo Qiao, Xiangxiang Zeng, Guishen Wang, Le-Yi Wei
Deep Generative Models in De Novo Drug Molecule Generation. Journal of chemical information and modeling (2023)
Yu Wang, Chao Pang, Yuzhe Wang, Junru Jin, Jingjie Zhang, Xiangxiang Zeng, Ran Su, Guishen Wang, Le-Yi Wei
Retrosynthesis prediction with an interpretable deep-learning framework based on molecular assembly tasks. Nature communications 14 (1) (2023)
Jici Jiang, Jiayu Li, Junxian Li, Hongdi Pei, Mingxin Li, Guishen Wang, Zhibin Lv
A Machine Learning Method to Identify Umami Peptide Sequences by Using Multiplicative LSTM Embedded Features. Foods (Basel, Switzerland) 12 (7) (2023)
Ruheng Wang, Yi Jiang, Junru Jin, Chenglin Yin, Haoqing Yu, Fengsheng Wang, Jiuxin Feng, Ran Su, Kenta Nakai, Guishen Wang, Le-Yi Wei
DeepBIO: an automated and interpretable deep-learning platform for high-throughput biological sequence prediction, functional annotation and visualization analysis. Nucleic acids research (2023)
Ruheng Wang, Junru Jin, Guishen Wang, Kenta Nakai, Le-Yi Wei
Predicting protein-peptide binding residues via interpretable deep learning. Bioinformatics (Oxford, England) 38 (13) (2022)
Shulin Zhao, Qingfeng Pan, Guishen Wang, Ying Ju, Lei Shi, Xi Su
Identifying and Classifying Enhancers by Dinucleotide-Based Auto-Cross Covariance and Attention-Based Bi-LSTM. Computational and mathematical methods in medicine 2022 (2022)
Chichi Dai, Yi Jiang, Chenglin Yin, Ran Su, Xiangxiang Zeng, Guishen Wang, Kenta Nakai, Le-Yi Wei
scIMC: a platform for benchmarking comparison and visualization analysis of scRNA-seq data imputation methods. Nucleic acids research 50 (9) (2022)
Ran Su, Haitang Yang, Leyi Wei, Siqi Chen, Guishen Wang
A multi-label learning model for predicting drug-induced pathology in multi-organ based on toxicogenomics data. PLoS computational biology 18 (9) (2022)
Feifei Cui, Zilong Zhang, Chen Cao, Guishen Wang, Dong Chen, Xi Su
Protein-DNA/RNA interactions: Machine intelligence tools and approaches in the era of artificial intelligence and big data. Proteomics 22 (8) (2022)
Yanming Wei, Guishen Wang, Furong Tang, Liang Yu
WMSA: a novel method for multiple sequence alignment of DNA sequences. Bioinformatics (Oxford, England) 38 (22) (2022)
Yansu Wang, Ximei Luo, Guishen Wang
Effector-GAN: prediction of fungal effector proteins based on pretrained deep representation learning methods and generative adversarial networks. Bioinformatics (Oxford, England) 38 (14) (2022)
Zilong Zhang, Feifei Cui, Wei Su, Lijun Dou, Anqi Xu, Chen Cao, Guishen Wang
webSCST: an interactive web application for single-cell RNA-sequencing data and spatial transcriptomic data integration. Bioinformatics (Oxford, England) 38 (13) (2022)
Furong Tang, Jiannan Chao, Yanming Wei, Fenglong Yang, Yixiao Zhai, Lei Xu, Guishen Wang
HAlign 3: Fast Multiple Alignment of Ultra-Large Numbers of Similar DNA/RNA Sequences. Molecular biology and evolution 39 (8) (2022)
Mobeen Ur Rehman, Hilal Tayara, Guishen Wang, Kil To Chong
i6mA-Caps: a CapsuleNet-based framework for identifying DNA N6-methyladenine sites. Bioinformatics (Oxford, England) 38 (16) (2022)
Mengting Niu, Guishen Wang, Chen Lin
CRBPDL: Identification of circRNA-RBP interaction sites using an ensemble neural network approach. PLoS computational biology 18 (1) (2022)
Da Zhao, Zheng Chen, Lei Xu, Lijun Zhang, Guishen Wang
Genome-Wide Analysis of the MADS-Box Gene Family in Maize: Gene Structure, Evolution, and Relationships. Genes 12 (12) (2021)
Changli Feng, Haiyan Wei, Deyun Yang, Bin Feng, Zhaogui Ma, Shuguang Han, Guishen Wang, Hua Shi
ORS-Pred: An optimized reduced scheme-based identifier for antioxidant proteins. Proteomics 21 (15) (2021)
Yansu Wang, Murong Zhou, Guishen Wang, Lei Xu
Machine learning for phytopathology: from the molecular scale towards the network scale. Briefings in bioinformatics 22 (5) (2021)
Jing Li, Lichao Zhang, Shida He, Fei Guo, Guishen Wang
SubLocEP: a novel ensemble predictor of subcellular localization of eukaryotic mRNA based on machine learning. Briefings in bioinformatics 22 (5) (2021)
Mengting Niu, Yuan Lin, Guishen Wang
sgRNACNN: identifying sgRNA on-target activity in four crops using ensembles of convolutional neural networks. Plant molecular biology 105 (4-5) (2021)
Fenglong Yang, Guishen Wang, Bo Gao
GutBalance: a server for the human gut microbiome-based disease prediction and biomarker discovery with compositionality addressed. Briefings in bioinformatics 22 (5) (2021)
Lijun Cai, Li Wang, Xiangzheng Fu, Chenxing Xia, Xiangxiang Zeng, Guishen Wang
ITP-Pred: an interpretable method for predicting, therapeutic peptides with fused features low-dimension representation. Briefings in bioinformatics 22 (4) (2021)
Yuansheng Liu, Xiaocai Zhang, Guishen Wang, Xiangxiang Zeng
Minirmd: accurate and fast duplicate removal tool for short reads via multiple minimizers. Bioinformatics (Oxford, England) 37 (11) (2021)
Chen Cao, Jianhua Wang, Devin Kwok, Feifei Cui, Zilong Zhang, Da Zhao, Mulin Jun Li, Guishen Wang
webTWAS: a resource for disease candidate susceptibility genes identified by transcriptome-wide association study. Nucleic acids research (2021)
Zhibin Lv, Feifei Cui, Guishen Wang, Lichao Zhang, Lei Xu
Anticancer peptides prediction with deep representation learning features. Briefings in bioinformatics 22 (5) (2021)
Yujia Xiang, Guishen Wang, Lilin Zhao
VPTMdb: a viral posttranslational modification database. Briefings in bioinformatics 22 (4) (2021)
Zilong Zhang, Feifei Cui, Chunyu Wang, Lingling Zhao, Guishen Wang
Goals and approaches for each processing step for single-cell RNA sequencing data. Briefings in bioinformatics 22 (4) (2021)
Xiaoqing Ru, Xiucai Ye, Tetsuya Sakurai, Guishen Wang
Application of learning to rank in bioinformatics tasks. Briefings in bioinformatics 22 (5) (2021)
Yansu Wang, Lei Xu, Guishen Wang, Chen Lin
prPred-DRLF: Plant R protein predictor using deep representation learning features. Proteomics (2021)
Shanwen Sun, Lei Xu, Guishen Wang, Guohua Wang
BP4RNAseq: a babysitter package for retrospective and newly generated RNA-seq data analyses using both alignment-based and alignment-free quantification method. Bioinformatics (Oxford, England) 37 (9) (2021)
Lei Xu, Shanshan Jiang, Jin Wu, Guishen Wang
An in silico approach to identification, categorization and prediction of nucleic acid binding proteins. Briefings in bioinformatics 22 (3) (2021)
Feifei Cui, Guishen Wang
Biocomputing and Synthetic Biology in Cells: Cells Special Issue. Cells 9 (11) (2020)
Liang Yu, Yayong Shi, Guishen Wang, Shuhang Wang, Liping Zheng, Lin Gao
Exploring Drug Treatment Patterns Based on the Action of Drug and Multilayer Network Model. International journal of molecular sciences 21 (14) (2020)
Zheng Chen, Zijie Shen, Da Zhao, Lei Xu, Lijun Zhang, Guishen Wang
Genome-Wide Analysis of LysM-Containing Gene Family in Wheat: Structural and Phylogenetic Analysis during Development and Defense. Genes 12 (1) (2020)
Zhibin Lv, Chunyan Ao, Guishen Wang
Protein Function Prediction: From Traditional Classifier to Deep Learning. Proteomics 19 (14) (2019)
Xin Liang, Wen Zhu, Zhibin Lv, Guishen Wang
Molecular Computing and Bioinformatics. Molecules (Basel, Switzerland) 24 (13) (2019)
Yanjuan Li, Mengting Niu, Guishen Wang
ELM-MHC: An Improved MHC Identification Method with Extreme Learning Machine Algorithm. Journal of proteome research 18 (3) (2019)
Xiangxiang Zeng, Wei Lin, Maozu Guo, Guishen Wang
Details in the evaluation of circular RNA detection tools: Reply to Chen and Chuang. PLoS computational biology 15 (4) (2019)
Chaolu Meng, Leyi Wei, Guishen Wang
SecProMTB: Support Vector Machine-Based Classifier for Secretory Proteins Using Imbalanced Data Sets Applied to Mycobacterium tuberculosis. Proteomics 19 (17) (2019)
Xiaoqing Ru, Lihong Li, Guishen Wang
Incorporating Distance-Based Top-n-gram and Random Forest To Identify Electron Transport Proteins. Journal of proteome research 18 (7) (2019)
Haochen Zhao, Linai Kuang, Xiang Feng, Guishen Wang, Lei Wang
A Novel Approach Based on a Weighted Interactive Network to Predict Associations of MiRNAs and Diseases. International journal of molecular sciences 20 (1) (2018)
Guishen Wang, Pengwei Xing, Leyi Wei, Bin Liu
Gene2vec: gene subsequence embedding for prediction of mammalian N 6-methyladenosine sites from mRNA. RNA (New York, N.Y.) 25 (2) (2018)
Guishen Wang, Wenying He
Special Protein Molecules Computational Identification. International journal of molecular sciences 19 (2) (2018)
Guishen Wang, Dariusz Mrozek, Qin Ma, Yungang Xu
Scalable Data Mining Algorithms in Computational Biology and Biomedicine. BioMed research international 2017 (2017)
Le-Yi Wei, PengWei Xing, Ran Su, Gaotao Shi, Zhanshan Sam Ma, Guishen Wang
CPPred-RF: A Sequence-based Predictor for Identifying Cell-Penetrating Peptides and Their Uptake Efficiency. Journal of proteome research 16 (5) (2017)
Xiangxiang Zeng, Wei Lin, Maozu Guo, Guishen Wang
A comprehensive overview and evaluation of circular RNA detection tools. PLoS computational biology 13 (6) (2017)
Jieru Zhang, Ying Ju, Huijuan Lu, Ping Xuan, Guishen Wang
Accurate Identification of Cancerlectins through Hybrid Machine Learning Technology. International journal of genomics 2016 (2016)
Limin Jiang, Jingjun Zhang, Ping Xuan, Guishen Wang
BP Neural Network Could Help Improve Pre-miRNA Identification in Various Species. BioMed research international 2016 (2016)
Zhijun Liao, Ying Ju, Guishen Wang
Prediction of G Protein-Coupled Receptors with SVM-Prot Features and Random Forest. Scientifica 2016 (2016)