Trends in Bioinformatics1994-79412077-2254Asian Network for Scientific Information10.3923/tb.2019.1.6HernándezHernán G. Leonardo López-CepedaMisael A. Contreras-GarcíaGustavo Vargas-PorrasCarolina ArboledaHumberto 12019121Background 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.]]>Wong, E.M., M.C. Southey, S.B. Fox, M.A. Brown and J.G. Dowty et al.,201142333Ek, W.E., M. Rask-Andersen and A. Johansson,2016857Sandoval-Hernandez, A.G., H.G. Hernandez, A. Restrepo, J.I. Munoz and G.F. Bayon et al.,201658243253Wani, K. and K.D. Aldape,20161392177186Hernandez, H.G., M.Y. Tse, S.C. Pang, H. Arboleda and D.A. Forero,201355181197Xiao, Z., B. Li, G. Wang, W. Zhu and Z. Wang et al.,2014431154163Wojdacz, T.K., A. Dobrovic and L.L. Hansen,2008319031908Hussmann, D. and L.L. Hansen,20181708551571Hernandez, H.G., M.F. Mahecha, A. Mejia, H. Arboleda and D.A. Forero,2014295053Zhao, H.B.X. and F.G. Jiang,20151658435846Wojdacz, T.K., T. Borgbo and L.L. Hansen,20094231234Wojdacz, T.K., L.L. Hansen and A. Dobrovic,20082008Xi, Y. and W. Li,20092009Wojdacz, T.K., J.A. Windelov, B.B. Thestrup, T.E. Damsgaard, J. Overgaard and L.L. Hansen,20142014Aranyi, T. and G.E. Tusnady,20072007pp: 385-402pp: 385-402Daugaard, I., D. Hussmann, L. Kristensen, T. Kristensen and T.E. Kjeldsen et al.,20181011551166Coppede, F., P. Tannorella, A. Stoccoro, L. Chico, G. Siciliano, U. Bonuccelli and L. Migliore,2017161105111Chavez-Lizarraga, D., P. Zarate-Segura, J. Beltran-Montoya, C. Canchola-Sotelo, F. Vadillo-Ortega and E. Chavira-Suarez,201856210224Monge, R.E. and J.L. Crespo,20151716731689Pirhaji, L., M. Kargar, A. Sheari, H. Poormohammadi, M. Sadeghi, H. Pezeshk and C. Eslahchi,2008251380387Kalendar, R., D. Lee and A.H. Schulman,2011in silico PCR and oligonucleotide assembly and analysis.]]>98137144Kalendar, R., D. Lee and A.H. Schulman,2014In silico PCR and Oligonucleotide Assembly and Analysis.]]>2014pp: 271-302pp: 271-302Tusnady, G.E., I. Simon, A. Varadi and T. Aranyi,20052005Li, L.C. and R. Dahiya,20021814271431