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DOE OSTI · 2427472

GENTANGLE: integrated computational design of gene entanglements

Martí, Jose Manuel·Hsu, Chloe·Rochereau, Charlotte·Xu, Chenling·Blazejewski, Tomasz·Nisonoff, Hunter·Leonard, Sean P.·Kang-Yun, Christina S.·Chlebek, Jennifer·Ricci, Dante P.·Park, Dan·Wang, Harris·Listgarten, Jennifer·Jiao, Yongqin·Allen, Jonathan E.
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Abstract

The design of two overlapping genes in a microbial genome is an emerging technique for adding more reliable control mechanisms in engineered organisms for increased stability. The design of functional overlapping gene pairs is a challenging procedure, and computational design tools are used to improve the efficiency to deploy successful designs in genetically engineered systems. GENTANGLE (Gene Tuples ArraNGed in overLapping Elements) is a high-performance containerized pipeline for the computational design of two overlapping genes translated in different reading frames of the genome. This new software package can be used to design and test gene entanglements for microbial engineering projects using arbitrary sets of user-specified gene pairs.

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59 BASIC BIOLOGICAL SCIENCESBiological and medical sciences, Energy - Biomass, Computer science

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Martí, Jose Manuel, Hsu, Chloe, Rochereau, Charlotte, Xu, Chenling, Blazejewski, Tomasz, Nisonoff, Hunter, Leonard, Sean P., Kang-Yun, Christina S., Chlebek, Jennifer, Ricci, Dante P., Park, Dan, Wang, Harris, Listgarten, Jennifer, Jiao, Yongqin, Allen, Jonathan E.. 2024-06-21. GENTANGLE: integrated computational design of gene entanglements. https://doi.org/10.1093/bioinformatics%2Fbtae380

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