Subscribe Now Subscribe Today
Science Alert
 
FOLLOW US:     Facebook     Twitter
Blue
   
Curve Top
Trends in Bioinformatics
  Year: 2019 | Volume: 12 | Issue: 1 | Page No.: 1-6
DOI: 10.3923/tb.2019.1.6
 
Facebook Twitter Digg Reddit Linkedin StumbleUpon E-mail
Bisulfite Conversion DNA Visualizer for Designing DNA Methylation Primers
Hernán G. Hernández , Misael Leonardo López-Cepeda , Gustavo A. Contreras-García, Carolina Vargas-Porras and Humberto Arboleda

Abstract:
Background and Objective: An important guideline for preventing amplification bias in Polymerase chain reaction (PCR) based DNA methylation techniques was recently proposed. However, there is no software that facilitates visualizing and applying such recommendations in PCR primers design. The aim of this work was to provide a web tool to facilitate the visualization of critical sequence elements for the design of primers applying the most recent recommendations for PCR-based methylation techniques. Materials and Methods: BiCVisualizer, a script for the visualization of critical sequence elements was designed using Java/html. The amplification specificity of a set of 10 primer pairs designed with the visual assistance of this web-tool was evaluated in silico PCR using BiSearch software. Results: The in silico PCR test showed a mean of 353 matches per primer and strand (range 84-934) using BiSearch. BiSearch did not find non-specific amplification for any primer pair designed using BiCVisualizer. Conclusion: This script was designed to assist the effective design of primers for methylation-sensitive high-resolution melting, the utility of this tool was supported by in silico evaluation. Users requiring visual construct primers can now spend less time in primer design using BiCVisualizer tool.
PDF Fulltext XML References Citation Report Citation
How to cite this article:

Hernán G. Hernández, Misael Leonardo López-Cepeda, Gustavo A. Contreras-García, Carolina Vargas-Porras and Humberto Arboleda, 2019. Bisulfite Conversion DNA Visualizer for Designing DNA Methylation Primers. Trends in Bioinformatics, 12: 1-6.

DOI: 10.3923/tb.2019.1.6

URL: https://scialert.net/abstract/?doi=tb.2019.1.6

 
COMMENT ON THIS PAPER
 
 
 

 

 
 
 
 
 
 
 
 
 

 
 
 
 
 
 

       

       

Curve Bottom