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

Bangaru, Madhavi Latha Yadav and Medabalimi, Ravi Kumar and Babu, Sobhan and Raghavendra, Nidhanapati K. (2021) REMP software to introduce a screening REstriction site in site-directed Mutagenesis Primer. SoftwareX, 16. pp. 1-5. ISSN 2352-7110

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Abstract

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. © 2021

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IITH Creators:

IITH Creators	ORCiD
Babu, Sobhan	UNSPECIFIED
Raghavendra, Nidhanapati K	http://orcid.org/0000-0003-2220-1148

Item Type:

Article

Additional Information:

This work was supported in part by funds from Council of Scientific and Industrial Research, India , New Delhi [No. 13(8893-A)/2017-Pool ] to MLYB and Department of Biotechnology (India) [grant number BT/PR35825/BRB/10/1840/2019 ] to NKR.

Uncontrolled Keywords:

DNA mutant primer; Python 3; Restriction site; Silent mutation; Site-directed mutagenesis

Subjects:

Computer science
Others > Biotechnology

Divisions:

Department of Biotechnology
Department of Computer Science & Engineering

Depositing User:

. LibTrainee 2021

Date Deposited:

22 Sep 2022 14:36

Last Modified:

22 Sep 2022 14:37