Identification of Phage Viral Proteins With Hybrid Sequence Features

An Evolutionary Algorithm Based on Minkowski Distance for Many-Objective Optimization

(2019) Hang Xu et al.   IEEE Transactions on Cybernetics

Prediction of potential disease-associated microRNAs using structural perturbation method

(2018) Xiangxiang Zeng et al.   BIOINFORMATICS

DincRNA: a comprehensive web-based bioinformatics toolkit for exploring disease associations and ncRNA function

(2018) Liang Cheng et al.   BIOINFORMATICS

BNPMDA: Bipartite Network Projection for MiRNA–Disease Association prediction

(2018) Xing Chen et al.   BIOINFORMATICS

Predicting miRNA–disease association based on inductive matrix completion

(2018) Xing Chen et al.   BIOINFORMATICS

Identifying diseases-related metabolites using random walk

(2018) Yang Hu et al.   BMC BIOINFORMATICS

Protein-protein interface hot spots prediction based on a hybrid feature selection strategy

(2018) Yanhua Qiao et al.   BMC BIOINFORMATICS

Predicting Potential Drugs for Breast Cancer based on miRNA and Tissue Specificity

(2018) Liang Yu et al.   International Journal of Biological Sciences

HBPred: a tool to identify growth hormone-binding proteins

(2018) Hua Tang et al.   International Journal of Biological Sciences

SeqSVM: A Sequence-Based Support Vector Machine Method for Identifying Antioxidant Proteins

(2018) Lei Xu et al.   INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES

Integration of deep feature representations and handcrafted features to improve the prediction of N 6 -methyladenosine sites

(2018) Leyi Wei et al.   NEUROCOMPUTING

Co-regularized unsupervised feature selection

(2018) Pengfei Zhu et al.   NEUROCOMPUTING

Multi-view label embedding

(2018) Pengfei Zhu et al.   PATTERN RECOGNITION

Multi-label feature selection with missing labels

(2018) Pengfei Zhu et al.   PATTERN RECOGNITION

A Novel Hybrid Sequence-Based Model for Identifying Anticancer Peptides

(2018) Lei Xu et al.   Genes

M6APred-EL: A sequence-based predictor for identifying N6-methyladenosine sites using ensemble learning

(2018) Leyi Wei et al.   Molecular Therapy-Nucleic Acids

iRNA-3typeA: Identifying Three Types of Modification at RNA’s Adenosine Sites

(2018) Wei Chen et al.   Molecular Therapy-Nucleic Acids

iTerm-PseKNC: a sequence-based tool for predicting bacterial transcriptional terminators

(2018) Chao-Qin Feng et al.   BIOINFORMATICS

PseUI: Pseudouridine sites identification based on RNA sequence information

(2018) Jingjing He et al.   BMC BIOINFORMATICS

OUP accepted manuscript

(2018)   BRIEFINGS IN BIOINFORMATICS

Computational models for lncRNA function prediction and functional similarity calculation

(2018) Xing Chen et al.   Briefings in Functional Genomics

MDHGI: Matrix Decomposition and Heterogeneous Graph Inference for miRNA-disease association prediction

(2018) Xing Chen et al.   PLoS Computational Biology

Identify origin of replication in Saccharomyces cerevisiae using two-step feature selection technique

(2018) Fu-Ying Dao et al.   BIOINFORMATICS

A Parallel Workflow Pattern Modeling Using Spiking Neural P Systems With Colored Spikes

(2018) Tao Song et al.   IEEE TRANSACTIONS ON NANOBIOSCIENCE

Predicting protein structural classes for low-similarity sequences by evaluating different features

(2018) Xiao-Juan Zhu et al.   KNOWLEDGE-BASED SYSTEMS

PredT4SE-Stack: Prediction of Bacterial Type IV Secreted Effectors From Protein Sequences Using a Stacked Ensemble Method

(2018) Yi Xiong et al.   Frontiers in Microbiology

Predicting Influenza Antigenicity by Matrix Completion With Antigen and Antiserum Similarity

(2018) Peng Wang et al.   Frontiers in Microbiology

Classifying Included and Excluded Exons in Exon Skipping Event Using Histone Modifications

(2018) Wei Chen et al.   Frontiers in Genetics

Identification of protein subcellular localization via integrating evolutionary and physicochemical information into Chou’s general PseAAC

(2018) Yinan Shen et al.   JOURNAL OF THEORETICAL BIOLOGY

Prediction of Novel Drugs for Hepatocellular Carcinoma Based on Multi-Source Random Walk

(2017) Liang Yu et al.   IEEE-ACM Transactions on Computational Biology and Bioinformatics

Inferring MicroRNA-Disease Associations by Random Walk on a Heterogeneous Network with Multiple Data Sources

(2017) Yuansheng Liu et al.   IEEE-ACM Transactions on Computational Biology and Bioinformatics

Identification of drug-target interactions via multiple information integration

(2017) Yijie Ding et al.   INFORMATION SCIENCES

PSFM-DBT: Identifying DNA-Binding Proteins by Combing Position Specific Frequency Matrix and Distance-Bigram Transformation

(2017) et al.   INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES

Identification of Protein–Ligand Binding Sites by Sequence Information and Ensemble Classifier

(2017) Yijie Ding et al.   Journal of Chemical Information and Modeling

PDC-SGB: Prediction of effective drug combinations using a stochastic gradient boosting algorithm

(2017) Qian Xu et al.   JOURNAL OF THEORETICAL BIOLOGY

ProLanGO: Protein Function Prediction Using Neural Machine Translation Based on a Recurrent Neural Network

(2017) Renzhi Cao et al.   MOLECULES

Identification of DNA-Binding Proteins Using Mixed Feature Representation Methods

(2017) Kaiyang Qu et al.   MOLECULES

Predicting influenza antigenicity from Hemagglutintin sequence data based on a joint random forest method

(2017) Yuhua Yao et al.   Scientific Reports

LRSSLMDA: Laplacian Regularized Sparse Subspace Learning for MiRNA-Disease Association prediction

(2017) Xing Chen et al.   PLoS Computational Biology

Spiking Neural P Systems with Colored Spikes

(2017) Tao Song et al.   IEEE Transactions on Cognitive and Developmental Systems

Predicting protein-protein interactions via multivariate mutual information of protein sequences

(2016) Yijie Ding et al.   BMC BIOINFORMATICS

The extraction of drug-disease correlations based on module distance in incomplete human interactome

(2016) Liang Yu et al.   BMC Systems Biology

A comprehensive review and comparison of different computational methods for protein remote homology detection

(2016) Junjie Chen et al.   BRIEFINGS IN BIOINFORMATICS

Long non-coding RNAs and complex diseases: from experimental results to computational models

(2016) Xing Chen et al.   BRIEFINGS IN BIOINFORMATICS

Combining neighborhood separable subspaces for classification via sparsity regularized optimization

(2016) Pengfei Zhu et al.   INFORMATION SCIENCES

HDInsight4PSi: Boosting performance of 3D protein structure similarity searching with HDInsight clusters in Microsoft Azure cloud

(2016) Dariusz Mrozek et al.   INFORMATION SCIENCES

Integrated protein function prediction by mining function associations, sequences, and protein–protein and gene–gene interaction networks

(2016) Renzhi Cao et al.   METHODS

iPPBS-Opt: A Sequence-Based Ensemble Classifier for Identifying Protein-Protein Binding Sites by Optimizing Imbalanced Training Datasets

(2016) Jianhua Jia et al.   MOLECULES

Learning from real imbalanced data of 14-3-3 proteins binding specificity

(2016) Zhao Li et al.   NEUROCOMPUTING

A novel features ranking metric with application to scalable visual and bioinformatics data classification

(2016) Quan Zou et al.   NEUROCOMPUTING

OAHG: an integrated resource for annotating human genes with multi-level ontologies

(2016) Liang Cheng et al.   Scientific Reports

Accurate Identification of Cancerlectins through Hybrid Machine Learning Technology

(2016) Jieru Zhang et al.   International Journal of Genomics

Protein single-model quality assessment by feature-based probability density functions

(2016) Renzhi Cao et al.   Scientific Reports

Prediction of new drug indications based on clinical data and network modularity

(2016) Liang Yu et al.   Scientific Reports

RAMPred: identifying the N1-methyladenosine sites in eukaryotic transcriptomes

(2016) Wei Chen et al.   Scientific Reports

Inferring drug-disease associations based on known protein complexes

(2015) Liang Yu et al.   BMC Medical Genomics

Drug–target interaction prediction: databases, web servers and computational models

(2015) Xing Chen et al.   BRIEFINGS IN BIOINFORMATICS

Enhanced Protein Fold Prediction Method Through a Novel Feature Extraction Technique

(2015) Leyi Wei et al.   IEEE TRANSACTIONS ON NANOBIOSCIENCE

An Improved Protein Structural Classes Prediction Method by Incorporating Both Sequence and Structure Information

(2015) Leyi Wei et al.   IEEE TRANSACTIONS ON NANOBIOSCIENCE

An Ensemble Method to Distinguish Bacteriophage Virion from Non-Virion Proteins Based on Protein Sequence Characteristics

(2015) Lina Zhang et al.   INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES

An efficient and flexible scanning of databases of protein secondary structures

(2015) Dariusz Mrozek et al.   JOURNAL OF INTELLIGENT INFORMATION SYSTEMS

Pse-in-One: a web server for generating various modes of pseudo components of DNA, RNA, and protein sequences

(2015) Bin Liu et al.   NUCLEIC ACIDS RESEARCH

An Ensemble Method with Hybrid Features to Identify Extracellular Matrix Proteins

(2015) Runtao Yang et al.   PLoS One

Quartet-based methods to reconstruct phylogenetic networks

(2014) Jialiang Yang et al.   BMC Systems Biology

Identification of bacteriophage virion proteins by the ANOVA feature selection and analysis

(2014) Hui Ding et al.   Molecular BioSystems

LAceP: Lysine Acetylation Site Prediction Using Logistic Regression Classifiers

(2014) Ting Hou et al.   PLoS One

iSS-PseDNC: Identifying Splicing Sites Using Pseudo Dinucleotide Composition

(2014) Wei Chen et al.   Biomed Research International

iHSP-PseRAAAC: Identifying the heat shock protein families using pseudo reduced amino acid alphabet composition

(2013) Peng-Mian Feng et al.   ANALYTICAL BIOCHEMISTRY

Novel human lncRNA–disease association inference based on lncRNA expression profiles

(2013) Xing Chen et al.   BIOINFORMATICS

Survey of MapReduce frame operation in bioinformatics

(2013) Q. Zou et al.   BRIEFINGS IN BIOINFORMATICS

Naïve Bayes Classifier with Feature Selection to Identify Phage Virion Proteins

(2013) Peng-Mian Feng et al.   Computational and Mathematical Methods in Medicine

Identification of Antioxidants from Sequence Information Using Naïve Bayes

(2013) Peng-Mian Feng et al.   Computational and Mathematical Methods in Medicine

A Combination of Feature Extraction Methods with an Ensemble of Different Classifiers for Protein Structural Class Prediction Problem

(2013) Abdollah Dehzangi et al.   IEEE-ACM Transactions on Computational Biology and Bioinformatics

Quartet-Net: A Quartet-Based Method to Reconstruct Phylogenetic Networks

(2013) Jialiang Yang et al.   MOLECULAR BIOLOGY AND EVOLUTION

An Approach for Identifying Cytokines Based on a Novel Ensemble Classifier

(2013) Quan Zou et al.   Biomed Research International

CD-HIT: accelerated for clustering the next-generation sequencing data

(2012) Limin Fu et al.   BIOINFORMATICS

Identification of voltage-gated potassium channel subfamilies from sequence information using support vector machine

(2012) Wei Chen et al.   COMPUTERS IN BIOLOGY AND MEDICINE

Bacteriophages and their Implications on Future Biotechnology: A Review

(2012) Irshad UL Haq et al.   Virology Journal

Artificial Neural Networks Trained to Detect Viral and Phage Structural Proteins

(2012) Victor Seguritan et al.   PLoS Computational Biology

Reorganizing the protein space at the Universal Protein Resource (UniProt)

(2011)   NUCLEIC ACIDS RESEARCH

CD-HIT Suite: a web server for clustering and comparing biological sequences

(2010) Ying Huang et al.   BIOINFORMATICS

An accurate feature-based method for identifying DNA-binding residues on protein surfaces

(2010) Yi Xiong et al.   PROTEINS-STRUCTURE FUNCTION AND BIOINFORMATICS

An expert system to predict protein thermostability using decision tree

(2008) Li-Cheng Wu et al.   EXPERT SYSTEMS WITH APPLICATIONS

PseAAC: A flexible web server for generating various kinds of protein pseudo amino acid composition

(2007) Hong-Bin Shen et al.   ANALYTICAL BIOCHEMISTRY