Swiss-PO: a new tool to analyze the impact of mutations on protein three-dimensional structures for precision oncology
Swiss-PO is a new web tool to map gene mutations on the 3D structure of corresponding proteins and to intuitively assess the structural implications of protein variants for precision oncology. Swiss-PO is constructed around a manually curated database of 3D structures, variant annotations, and seque...
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Nature Portfolio
2021
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oai:doaj.org-article:702e48919089478d814315a34c38440a2021-12-02T16:30:41ZSwiss-PO: a new tool to analyze the impact of mutations on protein three-dimensional structures for precision oncology10.1038/s41698-021-00156-52397-768Xhttps://doaj.org/article/702e48919089478d814315a34c38440a2021-03-01T00:00:00Zhttps://doi.org/10.1038/s41698-021-00156-5https://doaj.org/toc/2397-768XSwiss-PO is a new web tool to map gene mutations on the 3D structure of corresponding proteins and to intuitively assess the structural implications of protein variants for precision oncology. Swiss-PO is constructed around a manually curated database of 3D structures, variant annotations, and sequence alignments, for a list of 50 genes taken from the Ion AmpliSeqTM Custom Cancer Hotspot Panel. The website was designed to guide users in the choice of the most appropriate structure to analyze regarding the mutated residue, the role of the protein domain it belongs to, or the drug that could be selected to treat the patient. The importance of the mutated residue for the structure and activity of the protein can be assessed based on the molecular interactions exchanged with neighbor residues in 3D within the same protein or between different biomacromolecules, its conservation in orthologs, or the known effect of reported mutations in its 3D or sequence-based vicinity. Swiss-PO is available free of charge or login at https://www.swiss-po.ch .Fanny S. KrebsVincent ZoeteMaxence TrottetTimothée PouchonChristophe BovignyOlivier MichielinNature PortfolioarticleNeoplasms. Tumors. Oncology. Including cancer and carcinogensRC254-282ENnpj Precision Oncology, Vol 5, Iss 1, Pp 1-9 (2021) |
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DOAJ |
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DOAJ |
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EN |
| topic |
Neoplasms. Tumors. Oncology. Including cancer and carcinogens RC254-282 |
| spellingShingle |
Neoplasms. Tumors. Oncology. Including cancer and carcinogens RC254-282 Fanny S. Krebs Vincent Zoete Maxence Trottet Timothée Pouchon Christophe Bovigny Olivier Michielin Swiss-PO: a new tool to analyze the impact of mutations on protein three-dimensional structures for precision oncology |
| description |
Swiss-PO is a new web tool to map gene mutations on the 3D structure of corresponding proteins and to intuitively assess the structural implications of protein variants for precision oncology. Swiss-PO is constructed around a manually curated database of 3D structures, variant annotations, and sequence alignments, for a list of 50 genes taken from the Ion AmpliSeqTM Custom Cancer Hotspot Panel. The website was designed to guide users in the choice of the most appropriate structure to analyze regarding the mutated residue, the role of the protein domain it belongs to, or the drug that could be selected to treat the patient. The importance of the mutated residue for the structure and activity of the protein can be assessed based on the molecular interactions exchanged with neighbor residues in 3D within the same protein or between different biomacromolecules, its conservation in orthologs, or the known effect of reported mutations in its 3D or sequence-based vicinity. Swiss-PO is available free of charge or login at https://www.swiss-po.ch . |
| format |
article |
| author |
Fanny S. Krebs Vincent Zoete Maxence Trottet Timothée Pouchon Christophe Bovigny Olivier Michielin |
| author_facet |
Fanny S. Krebs Vincent Zoete Maxence Trottet Timothée Pouchon Christophe Bovigny Olivier Michielin |
| author_sort |
Fanny S. Krebs |
| title |
Swiss-PO: a new tool to analyze the impact of mutations on protein three-dimensional structures for precision oncology |
| title_short |
Swiss-PO: a new tool to analyze the impact of mutations on protein three-dimensional structures for precision oncology |
| title_full |
Swiss-PO: a new tool to analyze the impact of mutations on protein three-dimensional structures for precision oncology |
| title_fullStr |
Swiss-PO: a new tool to analyze the impact of mutations on protein three-dimensional structures for precision oncology |
| title_full_unstemmed |
Swiss-PO: a new tool to analyze the impact of mutations on protein three-dimensional structures for precision oncology |
| title_sort |
swiss-po: a new tool to analyze the impact of mutations on protein three-dimensional structures for precision oncology |
| publisher |
Nature Portfolio |
| publishDate |
2021 |
| url |
https://doaj.org/article/702e48919089478d814315a34c38440a |
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