MLACNN: an attention mechanism-based CNN architecture for predicting genome-wide DNA methylation

Deep learning predicts DNA methylation regulatory variants in the human brain and elucidates the genetics of psychiatric disorders

(2022) Jiyun Zhou et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Identifying RNA N6-Methyladenine Sites in Three Species Based on a Markov Model

(2021) Cong Pian et al.   Frontiers in Genetics

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

(2020) Kewei Liu et al.   BIOINFORMATICS

PretiMeth: precise prediction models for DNA methylation based on single methylation mark

(2020) Jianxiong Tang et al.   BMC GENOMICS

Methyltransferase DnmA is responsible for genome-wide N6-methyladenosine modifications at non-palindromic recognition sites in Bacillus subtilis

(2020) Taylor M Nye et al.   NUCLEIC ACIDS RESEARCH

SOMM4mC: a second-order Markov model for DNA N4-methylcytosine site prediction in six species

(2020) Jiali Yang et al.   BIOINFORMATICS

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

(2020) Haodong Xu et al.   BRIEFINGS IN BIOINFORMATICS

DeepTorrent: a deep learning-based approach for predicting DNA N4-methylcytosine sites

(2020) Quanzhong Liu et al.   BRIEFINGS IN BIOINFORMATICS

i6mA-Pred: Identifying DNA N6-methyladenine sites in the rice genome

(2019) Wei Chen et al.   BIOINFORMATICS

Global increase in DNA methylation during orange fruit development and ripening

(2019) Huan Huang et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

iN6-Methyl (5-step): Identifying RNA N6-methyladenosine sites using deep learning mode via Chou's 5-step rules and Chou's general PseKNC

(2019) Iman Nazari et al.   CHEMOMETRICS AND INTELLIGENT LABORATORY SYSTEMS

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

(2019) Manavalan et al.   Cells

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

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

(2018) Liang Cheng et al.   BIOINFORMATICS

iDNA6mA-PseKNC: Identifying DNA N 6 -methyladenosine sites by incorporating nucleotide physicochemical properties into PseKNC

(2018) Pengmian Feng et al.   GENOMICS

iMethyl-STTNC: Identification of N 6 -methyladenosine sites by extending the Idea of SAAC into Chou's PseAAC to formulate RNA sequences

(2018) Shahid Akbar et al.   JOURNAL OF THEORETICAL BIOLOGY

M6AMRFS: Robust Prediction of N6-Methyladenosine Sites With Sequence-Based Features in Multiple Species

(2018) Xiaoli Qiang et al.   Frontiers in Genetics

Predicting the impact of non-coding variants on DNA methylation

(2017) Haoyang Zeng et al.   NUCLEIC ACIDS RESEARCH

Detecting N6-methyladenosine sites from RNA transcriptomes using ensemble Support Vector Machines

(2017) Wei Chen et al.   Scientific Reports

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

MethyRNA: a web server for identification of N6-methyladenosine sites

(2016) Wei Chen et al.   JOURNAL OF BIOMOLECULAR STRUCTURE & DYNAMICS

AthMethPre: a web server for the prediction and query of mRNA m6A sites in Arabidopsis thaliana

(2016) Shunian Xiang et al.   Molecular BioSystems

SRAMP: prediction of mammalian N6-methyladenosine (m6A) sites based on sequence-derived features

(2016) Yuan Zhou et al.   NUCLEIC ACIDS RESEARCH

iRNA-Methyl: Identifying N6-methyladenosine sites using pseudo nucleotide composition

(2015) Wei Chen et al.   ANALYTICAL BIOCHEMISTRY

Identification and analysis of the N6-methyladenosine in the Saccharomyces cerevisiae transcriptome

(2015) Wei Chen et al.   Scientific Reports

Predicting genome-wide DNA methylation using methylation marks, genomic position, and DNA regulatory elements

(2015) Weiwei Zhang et al.   GENOME BIOLOGY

Predicting DNA methylation level across human tissues

(2014) Baoshan Ma et al.   NUCLEIC ACIDS RESEARCH

Whole-Genome Bisulfite Sequencing of Two Distinct Interconvertible DNA Methylomes of Mouse Embryonic Stem Cells

(2013) Ehsan Habibi et al.   Cell Stem Cell

RRBS-Analyser: A Comprehensive Web Server for Reduced Representation Bisulfite Sequencing Data Analysis

(2013) Tao Wang et al.   HUMAN MUTATION

Functions of DNA methylation: islands, start sites, gene bodies and beyond

(2012) Peter A. Jones   NATURE REVIEWS GENETICS

Quantitative Sequencing of 5-Methylcytosine and 5-Hydroxymethylcytosine at Single-Base Resolution

(2012) M. J. Booth et al.   SCIENCE

Methyl-DNA immunoprecipitation (MeDIP): Hunting down the DNA methylome

(2008) Filipe V. Jacinto et al.   BIOTECHNIQUES

DNA methylation landscapes: provocative insights from epigenomics

(2008) Miho M. Suzuki et al.   NATURE REVIEWS GENETICS