Related Experiment Video
Updated: Jan 22, 2026
Amplification, Next-generation Sequencing, and Genomic DNA Mapping of Retroviral Integration Sites
Published on: March 22, 2016
MM-6mAPred: identifying DNA N6-methyladenine sites based on Markov model
Cong Pian1,2, Guangle Zhang3, Fei Li2
1Department of Statistics, The Chinese University of Hong Kong, Sha Tin, Hong Kong.
Motivation:
Recent studies have shown that DNA N6-methyladenine (6mA) plays an important role in epigenetic modification of eukaryotic organisms. It has been found that 6mA is closely related to embryonic development, stress response and so on. Developing a new algorithm to quickly and accurately identify 6mA sites in genomes is important for explore their biological functions.
Results:
In this paper, we proposed a new classification method called MM-6mAPred based on a Markov model which makes use of the transition probability between adjacent nucleotides to identify 6mA site. The sensitivity and specificity of our method are 89.32% and 90.11%, respectively. The overall accuracy of our method is 89.72%, which is 6.59% higher than that of the previous method i6mA-Pred. It indicated that, compared with the 41 nucleotide chemical properties used by i6mA-Pred, the transition probability between adjacent nucleotides can capture more discriminant sequence information.
Availability And Implementation:
The web server of MM-6mAPred is freely accessible at http://www.insect-genome.com/MM-6mAPred/.
Supplementary Information:
Supplementary data are available at Bioinformatics online.
Related Concept Videos
01:49Conserved Binding Sites
Binding sites are often located in large pockets, and if their location on a protein’s surface is unknown, it can be predicted using various approaches. The energetic method computationally...
01:49Conserved Binding Sites
02:27DNA Base Pairing
02:27DNA Base Pairing
02:40Ligand Binding Sites
Protein-ligand interactions are quite specific; even though numerous potential ligands surround a cellular protein at any given time, only a particular ligand can bind to that protein. Moreover, a ligand binds only to a dedicated area on the surface of the protein, known as the...
02:40Ligand Binding Sites