ArticleBioinformatics (Oxford, England)2016
PinSnps: structural and functional analysis of SNPs in the context of protein interaction networks.
Article in Bioinformatics (Oxford, England), 2016. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 12 papers.
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Who cites it
12 citing papers in PubMed.
- An Integrated Computational Analysis of High-Risk SNPs in Angiopoietin-like Proteins (ANGPTL3 and ANGPTL8) Reveals Perturbed Protein Dynamics Associated with Cancer.Molecules (Basel, Switzerland) · 2023Article
- Solvent accessibility of E1α and E1β residues with known missense mutations causing pyruvate dehydrogenase complex (PDC) deficiency: Impact on PDC-E1 structure and function.Journal of inherited metabolic disease · 2022Article
- PSnpBind: a database of mutated binding site protein-ligand complexes constructed using a multithreaded virtual screening workflow.Journal of cheminformatics · 2022Article
- Worldwide Protein Data Bank (wwPDB): A virtual treasure for research in biotechnology.European journal of microbiology & immunology · 2022Review
- Pathogenic missense protein variants affect different functional pathways and proteomic features than healthy population variants.PLoS biology · 2021Article
- Literature mining for context-specific molecular relations using multimodal representations (COMMODAR).BMC bioinformatics · 2020Review
- Polymorphic sites preferentially avoid co-evolving residues in MHC class I proteins.PLoS computational biology · 2018Article
- HUMA: A platform for the analysis of genetic variation in humans.Human mutation · 2018Article
- Spatial distribution of disease-associated variants in three-dimensional structures of protein complexes.Oncogenesis · 2017Article
- GenProBiS: web server for mapping of sequence variants to protein binding sites.Nucleic acids research · 2017Article
- Role of Structural Bioinformatics in Drug Discovery by Computational SNP Analysis: Analyzing Variation at the Protein Level.Global heart · 2017Review
- Mutation-Structure-Function Relationship Based Integrated Strategy Reveals the Potential Impact of Deleterious Missense Mutations in Autophagy Related Proteins on Hepatocellular Carcinoma (HCC): A Comprehensive Informatics Approach.International journal of molecular sciences · 2017Article
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Authors and funding
3 authors.
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Abstract
unlabelledWe present a practical computational pipeline to readily perform data analyses of protein-protein interaction networks by using genetic and functional information mapped onto protein structures. We provide a 3D representation of the available protein structure and its regions (surface, interface, core and disordered) for the selected genetic variants and/or SNPs, and a prediction of the mutants' impact on the protein as measured by a range of methods. We have mapped in total 2587 genetic disorder-related SNPs from OMIM, 587 873 cancer-related variants from COSMIC, and 1 484 045 SNPs from dbSNP. All result data can be downloaded by the user together with an R-script to compute the enrichment of SNPs/variants in selected structural regions. AVAILABILITY AND IMPLEMENTATION: PinSnps is available as open-access service at http://fraternalilab.kcl.ac.uk/PinSnps/ CONTACT: franca.fraternali@kcl.ac.uk SUPPLEMENTARY INFORMATION: Supplementary data are available at Bioinformatics online.
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