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DrawTetrado to create layer diagrams of G4 structures

MOTIVATION: Quadruplexes are specific 3D structures found in nucleic acids. Due to the exceptional properties of these motifs, their exploration with the general-purpose bioinformatics methods can be problematic or insufficient. The same applies to visualizing their structure. A hand-drawn layer dia...

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Detalles Bibliográficos
Autores principales: Zurkowski, Michal, Zok, Tomasz, Szachniuk, Marta
Formato: Online Artículo Texto
Lenguaje:English
Publicado: Oxford University Press 2022
Materias:
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC9344840/
https://www.ncbi.nlm.nih.gov/pubmed/35703937
http://dx.doi.org/10.1093/bioinformatics/btac394
Descripción
Sumario:MOTIVATION: Quadruplexes are specific 3D structures found in nucleic acids. Due to the exceptional properties of these motifs, their exploration with the general-purpose bioinformatics methods can be problematic or insufficient. The same applies to visualizing their structure. A hand-drawn layer diagram is the most common way to represent the quadruplex anatomy. No molecular visualization software generates such a structural model based on atomic coordinates. RESULTS: DrawTetrado is an open-source Python program for automated visualization targeting the structures of quadruplexes and G4-helices. It generates static layer diagrams that represent structural data in a pseudo-3D perspective. The possibility to set color schemes, nucleotide labels, inter-element distances or angle of view allows for easy customization of the output drawing. AVAILABILITY AND IMPLEMENTATION: The program is available under the MIT license at https://github.com/RNApolis/drawtetrado.