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For: Wang D, Song L, Singh V, Rao S, An L, Madhavan S. SNP2Structure: A Public and Versatile Resource for Mapping and Three-Dimensional Modeling of Missense SNPs on Human Protein Structures. Comput Struct Biotechnol J 2015;13:514-9. [PMID: 26949480 PMCID: PMC4759123 DOI: 10.1016/j.csbj.2015.09.002] [Citation(s) in RCA: 14] [Impact Index Per Article: 1.4] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/23/2015] [Revised: 09/22/2015] [Accepted: 09/22/2015] [Indexed: 01/21/2023]  Open
Number Cited by Other Article(s)
1
Li Z, Chen L. Predicting functional consequences of SNPs on mRNA translation via machine learning. Nucleic Acids Res 2023;51:7868-7881. [PMID: 37427781 PMCID: PMC10450169 DOI: 10.1093/nar/gkad576] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/05/2022] [Revised: 05/18/2023] [Accepted: 06/23/2023] [Indexed: 07/11/2023]  Open
2
Tichkule S, Myung Y, Naung MT, Ansell BRE, Guy AJ, Srivastava N, Mehra S, Cacciò SM, Mueller I, Barry AE, van Oosterhout C, Pope B, Ascher DB, Jex AR. VIVID: a web application for variant interpretation and visualisation in multidimensional analyses. Mol Biol Evol 2022;39:6697981. [PMID: 36103257 PMCID: PMC9514033 DOI: 10.1093/molbev/msac196] [Citation(s) in RCA: 6] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/13/2022]  Open
3
Ammar A, Cavill R, Evelo C, Willighagen E. PSnpBind: a database of mutated binding site protein-ligand complexes constructed using a multithreaded virtual screening workflow. J Cheminform 2022;14:8. [PMID: 35227289 PMCID: PMC8886843 DOI: 10.1186/s13321-021-00573-5] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/11/2021] [Accepted: 11/18/2021] [Indexed: 11/15/2022]  Open
4
Krebs FS, Zoete V, Trottet M, Pouchon T, Bovigny C, Michielin O. Swiss-PO: a new tool to analyze the impact of mutations on protein three-dimensional structures for precision oncology. NPJ Precis Oncol 2021;5:19. [PMID: 33737716 PMCID: PMC7973488 DOI: 10.1038/s41698-021-00156-5] [Citation(s) in RCA: 6] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/28/2020] [Accepted: 02/04/2021] [Indexed: 12/12/2022]  Open
5
Konc J, Skrlj B, Erzen N, Kunej T, Janezic D. GenProBiS: web server for mapping of sequence variants to protein binding sites. Nucleic Acids Res 2019;45:W253-W259. [PMID: 28498966 PMCID: PMC5570222 DOI: 10.1093/nar/gkx420] [Citation(s) in RCA: 12] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/20/2017] [Accepted: 05/02/2017] [Indexed: 02/02/2023]  Open
6
Ofoegbu TC, David A, Kelley LA, Mezulis S, Islam SA, Mersmann SF, Strömich L, Vakser IA, Houlston RS, Sternberg MJE. PhyreRisk: A Dynamic Web Application to Bridge Genomics, Proteomics and 3D Structural Data to Guide Interpretation of Human Genetic Variants. J Mol Biol 2019;431:2460-2466. [PMID: 31075275 PMCID: PMC6597944 DOI: 10.1016/j.jmb.2019.04.043] [Citation(s) in RCA: 18] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/12/2019] [Revised: 04/02/2019] [Accepted: 04/29/2019] [Indexed: 12/12/2022]
7
Kreft L, Turan D, Hulstaert N, Botzki A, Martens L, Vandermarliere E. Scop3D: Online Visualization of Mutation Rates on Protein Structure. J Proteome Res 2019;18:765-769. [PMID: 30540477 DOI: 10.1021/acs.jproteome.8b00681] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
8
Glusman G, Rose PW, Prlić A, Dougherty J, Duarte JM, Hoffman AS, Barton GJ, Bendixen E, Bergquist T, Bock C, Brunk E, Buljan M, Burley SK, Cai B, Carter H, Gao J, Godzik A, Heuer M, Hicks M, Hrabe T, Karchin R, Leman JK, Lane L, Masica DL, Mooney SD, Moult J, Omenn GS, Pearl F, Pejaver V, Reynolds SM, Rokem A, Schwede T, Song S, Tilgner H, Valasatava Y, Zhang Y, Deutsch EW. Mapping genetic variations to three-dimensional protein structures to enhance variant interpretation: a proposed framework. Genome Med 2017;9:113. [PMID: 29254494 PMCID: PMC5735928 DOI: 10.1186/s13073-017-0509-y] [Citation(s) in RCA: 44] [Impact Index Per Article: 5.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/10/2022]  Open
9
Are Next-Generation Sequencing Tools Ready for the Cloud? Trends Biotechnol 2017;35:486-489. [DOI: 10.1016/j.tibtech.2017.03.005] [Citation(s) in RCA: 18] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/12/2017] [Revised: 02/23/2017] [Accepted: 03/03/2017] [Indexed: 11/22/2022]
10
Gress A, Ramensky V, Büch J, Keller A, Kalinina OV. StructMAn: annotation of single-nucleotide polymorphisms in the structural context. Nucleic Acids Res 2016;44:W463-8. [PMID: 27150811 PMCID: PMC4987916 DOI: 10.1093/nar/gkw364] [Citation(s) in RCA: 23] [Impact Index Per Article: 2.6] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/15/2016] [Accepted: 04/22/2016] [Indexed: 01/08/2023]  Open
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