A SNARE Protein Identification Method Based on iLearnPlus to Efficiently Solve the Data Imbalance Problem

SubtypeDrug: a software package for prioritization of candidate cancer subtype-specific drugs

(2021) Xudong Han et al.   BIOINFORMATICS

Granular multiple kernel learning for identifying RNA-binding protein residues via integrating sequence and structure information

(2021) Chao Yang et al.   NEURAL COMPUTING & APPLICATIONS

The stacking strategy-based hybrid framework for identifying non-coding RNAs

(2021) Xin Wang et al.   BRIEFINGS IN BIOINFORMATICS

iLearnPlus: a comprehensive and automated machine-learning platform for nucleic acid and protein sequence analysis, prediction and visualization

(2021) Zhen Chen et al.   NUCLEIC ACIDS RESEARCH

MUFFIN: multi-scale feature fusion for drug–drug interaction prediction

(2021) Yujie Chen et al.   BIOINFORMATICS

Identification of protein-nucleotide binding residues via graph regularized k-local hyperplane distance nearest neighbor model

(2021) Yijie Ding et al.   APPLIED INTELLIGENCE

DLpTCR: an ensemble deep learning framework for predicting immunogenic peptide recognized by T cell receptor

(2021) Zhaochun Xu et al.   BRIEFINGS IN BIOINFORMATICS

BioSeq-BLM: a platform for analyzing DNA, RNA and protein sequences based on biological language models

(2021) Hong-Liang Li et al.   NUCLEIC ACIDS RESEARCH

RFhy-m2G: Identification of RNA N2-methylguanosine modification sites based on random forest and hybrid features

(2021) Chunyan Ao et al.   METHODS

GCN-CNN: A Novel Deep Learning Method for Prioritizing lncRNA Target Genes

(2020) Tianyi Zhao et al.   BIOINFORMATICS

Application of deep learning methods in biological networks

(2020) Shuting Jin et al.   BRIEFINGS IN BIOINFORMATICS

Integrated Analysis of mRNA-seq and miRNA-seq to Identify c-MYC, YAP1 and miR-3960 as Major Players in the Anticancer Effects of Caffeic Acid Phenethyl ester in Human Small Cell Lung Cancer Cell Line

(2020) Fei Mo et al.   CURRENT GENE THERAPY

IDP-Seq2Seq: Identification of Intrinsically Disordered Regions based on Sequence to Sequence Learning

(2020) Yi-Jun Tang et al.   BIOINFORMATICS

FoldRec-C2C: protein fold recognition by combining cluster-to-cluster model and protein similarity network

(2020) Jiangyi Shao et al.   BRIEFINGS IN BIOINFORMATICS

Systemic Therapy for Hepatocellular Carcinoma: Advances and Hopes

(2020) Chen-Hao Zhang et al.   CURRENT GENE THERAPY

iPromoter-5mC: A Novel Fusion Decision Predictor for the Identification of 5-Methylcytosine Sites in Genome-Wide DNA Promoters

(2020) Lei Zhang et al.   Frontiers in Cell and Developmental Biology

ProtFold-DFG: protein fold recognition by combining Directed Fusion Graph and PageRank algorithm

(2020) Jiangyi Shao et al.   BRIEFINGS IN BIOINFORMATICS

A Method for Identifying Vesicle Transport Proteins Based on LibSVM and MRMD

(2020) Zhiyu Tao et al.   Computational and Mathematical Methods in Medicine

An Automated Model for Target Protein prediction in PPI

(2020) G. Naveen Sundar et al.   Current Bioinformatics

Gene selection in Multi-class imbalanced microarray datasets using Dynamic Length Particle Swarm Optimization

(2020) R. Devi Priya et al.   Current Bioinformatics

Prediction of transcription factors binding events based on epigenetic modifications in different human cells

(2020) Yan Huang et al.   Epigenomics

Discrimination of Thermophilic Proteins and Non-thermophilic Proteins Using Feature Dimension Reduction

(2020) Zifan Guo et al.   Frontiers in Bioengineering and Biotechnology

Prediction of bio-sequence modifications and the associations with diseases

(2020) Chunyan Ao et al.   Briefings in Functional Genomics

Protein Secondary Structure Prediction Using Character Bi-gram Embedding and Bi-LSTM

(2020) Ashish Kumar Sharma et al.   Current Bioinformatics

Prediction of drug-target interactions based on multi-layer network representation learning

(2020) Yifan Shang et al.   NEUROCOMPUTING

SecProMTB: Support vector machine‐based classifier for secretory proteins using imbalanced data sets applied to Mycobacterium tuberculosis

(2019) Chaolu Meng et al.   PROTEOMICS

A Systematic Review on Imbalanced Data Challenges in Machine Learning

(2019) Harsurinder Kaur et al.   ACM COMPUTING SURVEYS

Predicting LncRNA Subcellular Localization Using Unbalanced Pseudo-k Nucleotide Compositions

(2019) Xiao-Fei Yang et al.   Current Bioinformatics

BioSeq-Analysis2.0: an updated platform for analyzing DNA, RNA and protein sequences at sequence level and residue level based on machine learning approaches

(2019) Bin Liu et al.   NUCLEIC ACIDS RESEARCH

MotifCNN-fold: protein fold recognition based on fold-specific features extracted by motif-based convolutional neural networks

(2019) Chen-Chen Li et al.   BRIEFINGS IN BIOINFORMATICS

DeepSVM-fold: protein fold recognition by combining support vector machines and pairwise sequence similarity scores generated by deep learning networks

(2019) Bin Liu et al.   BRIEFINGS IN BIOINFORMATICS

Non-coding RNA associated Competitive Endogenous RNA Regulatory Network: Novel Therapeutic Approach in Liver Fibrosis

(2019) Farooq Riaz et al.   CURRENT GENE THERAPY

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

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

Antimicrobial peptide identification using multi-scale convolutional network

(2019) Xin Su et al.   BMC BIOINFORMATICS

Identification of membrane protein types via multivariate information fusion with Hilbert–Schmidt Independence Criterion

(2019) Hao Wang et al.   NEUROCOMPUTING

ACPred-FL: a sequence-based predictor using effective feature representation to improve the prediction of anti-cancer peptides

(2018) Leyi Wei et al.   BIOINFORMATICS

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

(2018) Liang Cheng et al.   BIOINFORMATICS

Controlling of glutamate release by neuregulin3 via inhibiting the assembly of the SNARE complex

(2018) Ya-Nan Wang et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Comparative Activity of Adenosine Deaminase Acting on RNA (ADARs) Isoforms for Correction of Genetic Code in Gene Therapy

(2018) Thoufic Anam Azad et al.   CURRENT GENE THERAPY

iPSW(2L)-PseKNC: A two-layer predictor for identifying promoters and their strength by hybrid features via pseudo K-tuple nucleotide composition

(2018) Xuan Xiao et al.   GENOMICS

Fast prediction of protein methylation sites using a sequence-based feature selection technique

(2017) Leyi Wei et al.   IEEE-ACM Transactions on Computational Biology and Bioinformatics

MOEA/HD: A Multiobjective Evolutionary Algorithm Based on Hierarchical Decomposition

(2017) Hang Xu et al.   IEEE Transactions on Cybernetics

IntNetLncSim: an integrative network analysis method to infer human lncRNA functional similarity

(2016) Liang Cheng et al.   Oncotarget

Harnessing Computational Biology for Exact Linear B-Cell Epitope Prediction: A Novel Amino Acid Composition-Based Feature Descriptor

(2015) Vijayakumar Saravanan et al.   OMICS-A JOURNAL OF INTEGRATIVE BIOLOGY

Predicting human microRNA-disease associations based on support vector machine

(2013) Qinghua Jiang et al.   International Journal of Data Mining and Bioinformatics

Composite Structural Motifs of Binding Sites for Delineating Biological Functions of Proteins

(2012) Akira R. Kinjo et al.   PLoS One

Predicting Functions of Proteins in Mouse Based on Weighted Protein-Protein Interaction Network and Protein Hybrid Properties

(2011) Lele Hu et al.   PLoS One