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

Identification of Protein Subcellular Localization With Network and Functional Embeddings

(2021) Xiaoyong Pan et al.   Frontiers in Genetics

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

Identification of RNA pseudouridine sites using deep learning approaches

(2021) Abu Zahid Bin Aziz et al.   PLoS One

DNN-m6A: A Cross-Species Method for Identifying RNA N6-methyladenosine Sites Based on Deep Neural Network with Multi-Information Fusion

(2021) Lu Zhang et al.   Genes

Determining protein–protein functional associations by functional rules based on gene ontology and KEGG pathway

(2021) Yu-Hang Zhang et al.   BIOCHIMICA ET BIOPHYSICA ACTA-PROTEINS AND PROTEOMICS

Inspector: a lysine succinylation predictor based on edited nearest-neighbor undersampling and adaptive synthetic oversampling

(2020) Yan Zhu et al.   ANALYTICAL BIOCHEMISTRY

iMRM:a platform for simultaneously identifying multiple kinds of RNA modifications

(2020) Kewei Liu et al.   BIOINFORMATICS

ECFS-DEA: an ensemble classifier-based feature selection for differential expression analysis on expression profiles

(2020) Xudong Zhao et al.   BMC BIOINFORMATICS

Investigating the gene expression profiles of cells in seven embryonic stages with machine learning algorithms

(2020) Lei Chen et al.   GENOMICS

Accurate prediction of species-specific 2-hydroxyisobutyrylation sites based on machine learning frameworks

(2020) You-Gan Wang et al.   ANALYTICAL BIOCHEMISTRY

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

(2020) Tianyi Zhao et al.   BIOINFORMATICS

MRMD2.0: A Python tool for machine learning features ranking and reduction

(2020) Shida He et al.   Current Bioinformatics

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

(2020) Yi-Jun Tang et al.   BIOINFORMATICS

Multi-substrate selectivity based on key loops and non-homologous domains: new insight into ALKBH family

(2020) Baofang Xu et al.   CELLULAR AND MOLECULAR LIFE SCIENCES

Investigation and Prediction of Human Interactome Based on Quantitative Features

(2020) Xiaoyong Pan et al.   Frontiers in Bioengineering and Biotechnology

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

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

Identification of Drug–Target Interactions via Dual Laplacian Regularized Least Squares with Multiple Kernel Fusion

(2020) Yijie Ding et al.   KNOWLEDGE-BASED SYSTEMS

Genetic variant rs17185536 regulates SIM1 gene expression in human brain hypothalamus

(2019) Guiyou Liu et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

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

Computational methods for identifying similar diseases

(2019) Liang Cheng et al.   Molecular Therapy-Nucleic Acids

Comprehensive review and assessment of computational methods for predicting RNA post-transcriptional modification sites from RNA sequences

(2019) Zhen Chen 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

Computational and Biological Methods for Gene Therapy

(2019) Liang Cheng   CURRENT GENE THERAPY

Identification of drug–target interactions via fuzzy bipartite local model

(2019) Yijie Ding et al.   NEURAL COMPUTING & APPLICATIONS

Fold-LTR-TCP: protein fold recognition based on triadic closure principle

(2019) Bin Liu et al.   BRIEFINGS IN BIOINFORMATICS

i4mC-ROSE, a bioinformatics tool for the identification of DNA N4-methylcytosine sites in the Rosaceae genome

(2019) Md. Mehedi Hasan et al.   INTERNATIONAL JOURNAL OF BIOLOGICAL MACROMOLECULES

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

(2019) Hao Wang et al.   NEUROCOMPUTING

iRNA-m2G: Identifying N2-methylguanosine Sites Based on Sequence-Derived Information

(2019) Wei Chen et al.   Molecular Therapy-Nucleic Acids

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

(2018) Liang Cheng et al.   BIOINFORMATICS

Prediction of human protein subcellular localization using deep learning

(2018) Leyi Wei et al.   JOURNAL OF PARALLEL AND DISTRIBUTED COMPUTING

RFAthM6A: a new tool for predicting m6A sites in Arabidopsis thaliana

(2018) Xiaofeng Wang et al.   PLANT MOLECULAR BIOLOGY

PseUI: Pseudouridine sites identification based on RNA sequence information

(2018) Jingjing He et al.   BMC BIOINFORMATICS

Identifying Phage Virion Proteins by Using Two-Step Feature Selection Methods

(2018) Jiu-Xin Tan et al.   MOLECULES

iRNA-PseKNC(2methyl): Identify RNA 2'-O-methylation sites by convolution neural network and Chou's pseudo components

(2018) Muhammad Tahir et al.   JOURNAL OF THEORETICAL BIOLOGY

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

MeDReaders: a database for transcription factors that bind to methylated DNA

(2017) Guohua Wang et al.   NUCLEIC ACIDS RESEARCH

RMBase v2.0: deciphering the map of RNA modifications from epitranscriptome sequencing data

(2017) Jia-Jia Xuan et al.   NUCLEIC ACIDS RESEARCH

Identifying N6-methyladenosine sites using multi-interval nucleotide pair position specificity and support vector machine

(2017) Pengwei Xing et al.   Scientific Reports

RNA-MethylPred: A high-accuracy predictor to identify N6-methyladenosine in RNA

(2016) Cang-Zhi Jia et al.   ANALYTICAL BIOCHEMISTRY

PseKRAAC: a flexible web server for generating pseudo K-tuple reduced amino acids composition

(2016) Yongchun Zuo et al.   BIOINFORMATICS

GtRNAdb 2.0: an expanded database of transfer RNA genes identified in complete and draft genomes

(2015) Patricia P. Chan et al.   NUCLEIC ACIDS RESEARCH

RMBase: a resource for decoding the landscape of RNA modifications from high-throughput sequencing data

(2015) Wen-Ju Sun et al.   NUCLEIC ACIDS RESEARCH

The Pivotal Regulatory Landscape of RNA Modifications

(2014) Sheng Li et al.   Annual Review of Genomics and Human Genetics

Improved and Promising Identification of Human MicroRNAs by Incorporating a High-Quality Negative Set

(2013) Leyi Wei et al.   IEEE-ACM Transactions on Computational Biology and Bioinformatics

iRSpot-PseDNC: identify recombination spots with pseudo dinucleotide composition

(2013) Wei Chen et al.   NUCLEIC ACIDS RESEARCH

Structural requirements for enzymatic activities of foamy virus protease-reverse transcriptase

(2013) Anna Schneider et al.   PROTEINS-STRUCTURE FUNCTION AND BIOINFORMATICS

MD SIMULATION STUDIES TO INVESTIGATE ISO-ENERGETIC CONFORMATIONAL BEHAVIOUR OF MODIFIED NUCLEOSIDES M2G AND M22G PRESENT IN tRNA

(2013) Rohit S Bavi et al.   Computational and Structural Biotechnology Journal

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

(2012) Limin Fu et al.   BIOINFORMATICS

FunSAV: Predicting the Functional Effect of Single Amino Acid Variants Using a Two-Stage Random Forest Model

(2012) Mingjun Wang et al.   PLoS One

Transcription factor and microRNA regulation in androgen-dependent and -independent prostate cancer cells

(2008) Guohua Wang et al.   BMC GENOMICS