REMP software to introduce a screening REstriction site in site-directed Mutagenesis Primer

Insertion of silent mutations allowing for restriction site modification aids in the screening of successful mutants during site directed mutagenesis. Introducing a new restriction site requires the analysis of degenerate sequences within mutant primer. As the total number of degenerate codons incre...

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Autores principales:	Madhavi Latha Yadav Bangaru, PhD, Ravi Kumar Medabalimi, Sobhan Babu, PhD, Nidhanapati K. Raghavendra, PhD
Formato:	article
Lenguaje:	EN
Publicado:	Elsevier 2021
Materias:	Site-directed mutagenesis Python 3 Silent mutation Restriction site DNA mutant primer Computer software QA76.75-76.765
Acceso en línea:	https://doaj.org/article/cd0ed638cc514d7999cb829537c20ff8
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spelling	oai:doaj.org-article:cd0ed638cc514d7999cb829537c20ff82021-11-20T05:07:25ZREMP software to introduce a screening REstriction site in site-directed Mutagenesis Primer2352-711010.1016/j.softx.2021.100881https://doaj.org/article/cd0ed638cc514d7999cb829537c20ff82021-12-01T00:00:00Zhttp://www.sciencedirect.com/science/article/pii/S2352711021001448https://doaj.org/toc/2352-7110Insertion of silent mutations allowing for restriction site modification aids in the screening of successful mutants during site directed mutagenesis. Introducing a new restriction site requires the analysis of degenerate sequences within mutant primer. As the total number of degenerate codons increases, the analysis becomes increasingly laborious, time-consuming and prone to errors. Towards this, a software named as ‘REMP’ (for REstriction site in Mutant Primer) was developed and described here. From the input sequence, REMP instantaneously generates degenerate sequences having restriction sites that are 6–8 base pairs in length. The output sequences are arranged based on the number of bases changed compared to the input sequence. REMP software can be installed and run as a stand-alone program on different operating systems. Any user of REMP can edit the list of restriction sites to be considered by the software, without a need for writing a computer code or knowing a program language.Madhavi Latha Yadav Bangaru, PhDRavi Kumar MedabalimiSobhan Babu, PhDNidhanapati K. Raghavendra, PhDElsevierarticleSite-directed mutagenesisPython 3Silent mutationRestriction siteDNA mutant primerComputer softwareQA76.75-76.765ENSoftwareX, Vol 16, Iss , Pp 100881- (2021)
institution	DOAJ
collection	DOAJ
language	EN
topic	Site-directed mutagenesis Python 3 Silent mutation Restriction site DNA mutant primer Computer software QA76.75-76.765
spellingShingle	Site-directed mutagenesis Python 3 Silent mutation Restriction site DNA mutant primer Computer software QA76.75-76.765 Madhavi Latha Yadav Bangaru, PhD Ravi Kumar Medabalimi Sobhan Babu, PhD Nidhanapati K. Raghavendra, PhD REMP software to introduce a screening REstriction site in site-directed Mutagenesis Primer
description	Insertion of silent mutations allowing for restriction site modification aids in the screening of successful mutants during site directed mutagenesis. Introducing a new restriction site requires the analysis of degenerate sequences within mutant primer. As the total number of degenerate codons increases, the analysis becomes increasingly laborious, time-consuming and prone to errors. Towards this, a software named as ‘REMP’ (for REstriction site in Mutant Primer) was developed and described here. From the input sequence, REMP instantaneously generates degenerate sequences having restriction sites that are 6–8 base pairs in length. The output sequences are arranged based on the number of bases changed compared to the input sequence. REMP software can be installed and run as a stand-alone program on different operating systems. Any user of REMP can edit the list of restriction sites to be considered by the software, without a need for writing a computer code or knowing a program language.
format	article
author	Madhavi Latha Yadav Bangaru, PhD Ravi Kumar Medabalimi Sobhan Babu, PhD Nidhanapati K. Raghavendra, PhD
author_facet	Madhavi Latha Yadav Bangaru, PhD Ravi Kumar Medabalimi Sobhan Babu, PhD Nidhanapati K. Raghavendra, PhD
author_sort	Madhavi Latha Yadav Bangaru, PhD
title	REMP software to introduce a screening REstriction site in site-directed Mutagenesis Primer
title_short	REMP software to introduce a screening REstriction site in site-directed Mutagenesis Primer
title_full	REMP software to introduce a screening REstriction site in site-directed Mutagenesis Primer
title_fullStr	REMP software to introduce a screening REstriction site in site-directed Mutagenesis Primer
title_full_unstemmed	REMP software to introduce a screening REstriction site in site-directed Mutagenesis Primer
title_sort	remp software to introduce a screening restriction site in site-directed mutagenesis primer
publisher	Elsevier
publishDate	2021
url	https://doaj.org/article/cd0ed638cc514d7999cb829537c20ff8
work_keys_str_mv	AT madhavilathayadavbangaruphd rempsoftwaretointroduceascreeningrestrictionsiteinsitedirectedmutagenesisprimer AT ravikumarmedabalimi rempsoftwaretointroduceascreeningrestrictionsiteinsitedirectedmutagenesisprimer AT sobhanbabuphd rempsoftwaretointroduceascreeningrestrictionsiteinsitedirectedmutagenesisprimer AT nidhanapatikraghavendraphd rempsoftwaretointroduceascreeningrestrictionsiteinsitedirectedmutagenesisprimer
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REMP software to introduce a screening REstriction site in site-directed Mutagenesis Primer

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