Abstract
Nowadays most of the protocols used in biotechnology can be fully simulated and checked in-silico before being carried out in-vitro. Given the high level of complexity of the molecular phenomena involved in such protocols it has been observed that a consistent amount of money can be saved by both designing and simulating strategies like in-silico cloning that minimizes the probability of man-made error to occur. This aspect became especially relevant with the advent of disciplines like synthetic biology strongly relying on molecular biology protocols. Here we propose a new software package intended to provide molecular and synthetic biologists with an off-the-shelf tool to simulate widely used protocols in everyday lab practice. Here we describe routines meant to assist researchers through the whole experiment: from the cloning strategy design to the alignment of predicted and actual results. Cues for further research in this field are provided in the final part of the manuscript.
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References
Her, C.T., Weinshilboum, R.M.: Endonuclease-Mediated Long PCR and Its Application to Restriction Mapping (1999)
Luscombe, N.M., Greenbaum, D., Gerstein, M.: What is Bioinformatics? An Introduction and Overview. Department of Molecular Biophysics and Biochemistry Yale University New Haven, USA (2001)
Zhou, M.Y., Gomez-Sanchez, C.E.: Universal TA Cloning (2000)
Holland, R.C.G., Down, T.A., Pocock, M., Huen, D., James, K., Foisy, S.: BioJava: an Open-source Framework for Bioinformatics (2008)
Roberts, R.J., Macelis, D.: REBASE–restriction Enzymes and Methylases (2001)
McPherson, M.J., Moller, S.G.: PCR: The Basics from Background to Bench. BIOS Scientific Publishers (2000)
Pritchard, L., Corne, D., Kell, D., Rowland, J., Winson, M.: A General Model of Error-prone PCR (2005)
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Bevilacqua, V., Menolascina, F., Aurora, D., Lucivero, S., Quatela, N.F. (2010). A Novel Tool for Assisted In-silico Cloning and Sequence Editing in Molecular Biology. In: Huang, DS., McGinnity, M., Heutte, L., Zhang, XP. (eds) Advanced Intelligent Computing Theories and Applications. ICIC 2010. Communications in Computer and Information Science, vol 93. Springer, Berlin, Heidelberg. https://doi.org/10.1007/978-3-642-14831-6_32
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DOI: https://doi.org/10.1007/978-3-642-14831-6_32
Publisher Name: Springer, Berlin, Heidelberg
Print ISBN: 978-3-642-14830-9
Online ISBN: 978-3-642-14831-6
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