ApE, A Plasmid Editor: A Freely Available DNA Manipulation and Visualization Program

M Wayne Davis; Erik M Jorgensen

doi:10.3389/fbinf.2022.818619

ApE, A Plasmid Editor: A Freely Available DNA Manipulation and Visualization Program

Front Bioinform. 2022 Feb 4:2:818619. doi: 10.3389/fbinf.2022.818619. eCollection 2022.

Authors

M Wayne Davis¹, Erik M Jorgensen¹

Affiliation

¹ Howard Hughes Medical Institute and School of Biological Sciences, University of Utah, Salt Lake City, UT, United States.

Abstract

A plasmid Editor (ApE) is a free, multi-platform application for visualizing, designing, and presenting biologically relevant DNA sequences. ApE provides a flexible framework for annotating a sequence manually or using a user-defined library of features. ApE can be used in designing plasmids and other constructs via in silico simulation of cloning methods such as PCR, Gibson assembly, restriction-ligation assembly and Golden Gate assembly. In addition, ApE provides a platform for creating visually appealing linear and circular plasmid maps. It is available for Mac, PC, and Linux-based platforms and can be downloaded at https://jorgensen.biology.utah.edu/wayned/ape/.

Keywords: DNA visualization; freely available software; molecular biology tools; molecular techniques simulator; plasmid editor.

Grants and funding

R01 NS034307/NS/NINDS NIH HHS/United States