Empirical Comparison and Analysis of Web-Based DNA N4-Methylcytosine Site Prediction Tools

A novel DNA methylation motif identified in Bacillus pumilus BA06 and possible roles in the regulation of gene expression

(2020) Gang Liu et al.   APPLIED MICROBIOLOGY AND BIOTECHNOLOGY

StackCPPred: A Stacking and Pairwise Energy Content-based Prediction of Cell-Penetrating Peptides and Their Uptake Efficiency

(2020) Xiangzheng Fu et al.   BIOINFORMATICS

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

(2020) Kewei Liu et al.   BIOINFORMATICS

DNA4mC-LIP: a linear integration method to identify N4-methylcytosine site in multiple species

(2020) Qiang Tang et al.   BIOINFORMATICS

An Overview on Predicting Protein Subchloroplast Localization by using Machine Learning Methods

(2020) Meng-Lu Liu et al.   CURRENT PROTEIN & PEPTIDE SCIENCE

Machine intelligence in peptide therapeutics: A next‐generation tool for rapid disease screening

(2020) Shaherin Basith et al.   MEDICINAL RESEARCH REVIEWS

i6mA-Fuse: improved and robust prediction of DNA 6 mA sites in the Rosaceae genome by fusing multiple feature representation

(2020) Md. Mehedi Hasan et al.   PLANT MOLECULAR BIOLOGY

A Deep Neural Network for Identifying DNA N4-Methylcytosine Sites

(2020) Feng Zeng et al.   Frontiers in Genetics

HLPpred-Fuse: improved and robust prediction of hemolytic peptide and its activity by fusing multiple feature representation

(2020) Md Mehedi Hasan et al.   BIOINFORMATICS

Deep Learning to Predict Protein Backbone Structure from High-Resolution Cryo-EM Density Maps

(2020) Dong Si et al.   Scientific Reports

Early Diagnosis of Hepatocellular Carcinoma Using Machine Learning Method

(2020) Zi-Mei Zhang et al.   Frontiers in Bioengineering and Biotechnology

Deep4mC: systematic assessment and computational prediction for DNA N4-methylcytosine sites by deep learning

(2020) Haodong Xu et al.   BRIEFINGS IN BIOINFORMATICS

PEPred-Suite: improved and robust prediction of therapeutic peptides using adaptive feature representation learning

(2019) Leyi Wei et al.   BIOINFORMATICS

Iterative feature representations improve N4-methylcytosine site prediction

(2019) Leyi Wei et al.   BIOINFORMATICS

Meta-4mCpred: A Sequence-Based Meta-Predictor for Accurate DNA 4mC Site Prediction Using Effective Feature Representation

(2019) Balachandran Manavalan et al.   Molecular Therapy-Nucleic Acids

MDR: an integrative DNA N6-methyladenine and N4-methylcytosine modification database for Rosaceae

(2019) Zhao-Yu Liu et al.   Horticulture Research

The diverse roles of DNA methylation in mammalian development and disease

(2019) Maxim V. C. Greenberg et al.   NATURE REVIEWS MOLECULAR CELL BIOLOGY

iProEP: A Computational Predictor for Predicting Promoter

(2019) Hong-Yan Lai et al.   Molecular Therapy-Nucleic Acids

4mCpred-EL: An Ensemble Learning Framework for Identification of DNA N4-methylcytosine Sites in the Mouse Genome

(2019) Manavalan et al.   Cells

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

SDM6A: A Web-Based Integrative Machine-Learning Framework for Predicting 6mA Sites in the Rice Genome

(2019) Shaherin Basith et al.   Molecular Therapy-Nucleic Acids

iRNA-m7G: Identifying N7-methylguanosine Sites by Fusing Multiple Features

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

Bastion6: a bioinformatics approach for accurate prediction of type VI secreted effectors

(2018) Jiawei Wang et al.   BIOINFORMATICS

Machine-Learning-Based Prediction of Cell-Penetrating Peptides and Their Uptake Efficiency with Improved Accuracy

(2018) Balachandran Manavalan et al.   JOURNAL OF PROTEOME RESEARCH

Selective recognition of N 4-methylcytosine in DNA by engineered transcription-activator-like effectors

(2018) Preeti Rathi et al.   PHILOSOPHICAL TRANSACTIONS OF THE ROYAL SOCIETY B-BIOLOGICAL SCIENCES

4mCPred: Machine Learning Methods for DNA N4-methylcytosine sites Prediction

(2018) Wenying He et al.   BIOINFORMATICS

Exploring sequence-based features for the improved prediction of DNA N4-methylcytosine sites in multiple species

(2018) Leyi Wei et al.   BIOINFORMATICS

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

(2018) Chao-Qin Feng et al.   BIOINFORMATICS

Bastion3: a two-layer ensemble predictor of type III secreted effectors

(2018) Jiawei Wang et al.   BIOINFORMATICS

mAHTPred: a sequence-based meta-predictor for improving the prediction of anti-hypertensive peptides using effective feature representation

(2018) Balachandran Manavalan et al.   BIOINFORMATICS

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

(2018) Fu-Ying Dao et al.   BIOINFORMATICS

Recent advances in machine learning methods for predicting heat shock proteins

(2018) Wei Chen et al.   CURRENT DRUG METABOLISM

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

Empirical comparison and analysis of web-based cell-penetrating peptide prediction tools

(2018) Ran Su et al.   BRIEFINGS IN BIOINFORMATICS

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

(2017) Renzhi Cao et al.   MOLECULES

SMRT Sequencing Revealed Mitogenome Characteristics and Mitogenome-Wide DNA Modification Pattern in Ophiocordyceps sinensis

(2017) Xincong Kang et al.   Frontiers in Microbiology

DeepQA: improving the estimation of single protein model quality with deep belief networks

(2016) Renzhi Cao et al.   BMC BIOINFORMATICS

MethSMRT: an integrative database for DNA N6-methyladenine and N4-methylcytosine generated by single-molecular real-time sequencing

(2016) Pohao Ye et al.   NUCLEIC ACIDS RESEARCH

3-methylcytosine in cancer: an underappreciated methyl lesion?

(2016) Thomas Pataillot-Meakin et al.   Epigenomics

DNA methylation: roles in mammalian development

(2013) Zachary D. Smith et al.   NATURE REVIEWS GENETICS

DNA methylation dynamics in health and disease

(2013) Yehudit Bergman et al.   NATURE STRUCTURAL & MOLECULAR BIOLOGY

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

(2012) Limin Fu et al.   BIOINFORMATICS

Methylcytosine and Normal Cytosine Deamination by the Foreign DNA Restriction Enzyme APOBEC3A

(2012) Michael A. Carpenter et al.   JOURNAL OF BIOLOGICAL CHEMISTRY

Direct detection of DNA methylation during single-molecule, real-time sequencing

(2010) Benjamin A Flusberg et al.   NATURE METHODS

Bacterial genetics: past achievements, present state of the field, and future challenges

(2008) Herbert P. Schweizer   BIOTECHNIQUES