ArticleNucleic acids research2016
StructMAn: annotation of single-nucleotide polymorphisms in the structural context.
Article in Nucleic acids research, 2016. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 22 papers.
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Who cites it
22 citing papers in PubMed.
- ALPAR: automated learning pipeline for antimicrobial resistance.Bioinformatics (Oxford, England) · 2026Article
- StructMAn 2.0 Web: a web server for structural annotation of protein sequences and mutations.Nucleic acids research · 2025Article
- Prediction of cancer driver genes and mutations: the potential of integrative computational frameworks.Briefings in bioinformatics · 2024Review
- Changing selection on amino acid substitutions in Gag protein between major HIV-1 subtypes.Virus evolution · 2024Article
- Machine learning and phylogenetic analysis allow for predicting antibiotic resistance in M. tuberculosis.BMC microbiology · 2023Article
- 3DVizSNP: a tool for rapidly visualizing missense mutations identified in high throughput experiments in iCn3D.BMC bioinformatics · 2023Article
- Intragenic compensation through the lens of deep mutational scanning.Biophysical reviews · 2022Review
- d-StructMAn: Containerized structural annotation on the scale from genetic variants to whole proteomes.GigaScience · 2022Article
- PSnpBind: a database of mutated binding site protein-ligand complexes constructed using a multithreaded virtual screening workflow.Journal of cheminformatics · 2022Article
- An extended catalogue of tandem alternative splice sites in human tissue transcriptomes.PLoS computational biology · 2021Article
- Detecting Rewiring Events in Protein-Protein Interaction Networks Based on Transcriptomic Data.Frontiers in bioinformatics · 2021Review
- PertInInt: An Integrative, Analytical Approach to Rapidly Uncover Cancer Driver Genes with Perturbed Interactions and Functionalities.Cell systems · 2020Article
- Myeloid cells protect intestinal epithelial barrier integrity through the angiogenin/plexin-B2 axis.The EMBO journal · 2020Article
- VarMap: a web tool for mapping genomic coordinates to protein sequence and structure and retrieving protein structural annotations.Bioinformatics (Oxford, England) · 2019Article
- A comparative analysis of KMT2D missense variants in Kabuki syndrome, cancers and the general population.Journal of human genetics · 2019Article
- Systematic domain-based aggregation of protein structures highlights DNA-, RNA- and other ligand-binding positions.Nucleic acids research · 2019Article
- Computational Approaches to Prioritize Cancer Driver Missense Mutations.International journal of molecular sciences · 2018Review
- Impact of structural prior knowledge in SNV prediction: Towards causal variant finding in rare disease.PloS one · 2018Article
- Mapping genetic variations to three-dimensional protein structures to enhance variant interpretation: a proposed framework.Genome medicine · 2017Review
- Spatial distribution of disease-associated variants in three-dimensional structures of protein complexes.Oncogenesis · 2017Article
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Authors and funding
5 authors.
Funding
No grant is acknowledged in the PubMed record.
Abstract
The next generation sequencing technologies produce unprecedented amounts of data on the genetic sequence of individual organisms. These sequences carry a substantial amount of variation that may or may be not related to a phenotype. Phenotypically important part of this variation often comes in form of protein-sequence altering (non-synonymous) single nucleotide variants (nsSNVs). Here we present StructMAn, a Web-based tool for annotation of human and non-human nsSNVs in the structural context. StructMAn analyzes the spatial location of the amino acid residue corresponding to nsSNVs in the three-dimensional (3D) protein structure relative to other proteins, nucleic acids and low molecular-weight ligands. We make use of all experimentally available 3D structures of query proteins, and also, unlike other tools in the field, of structures of proteins with detectable sequence identity to them. This allows us to provide a structural context for around 20% of all nsSNVs in a typical human sequencing sample, for up to 60% of nsSNVs in genes related to human diseases and for around 35% of nsSNVs in a typical bacterial sample. Each nsSNV can be visualized and inspected by the user in the corresponding 3D structure of a protein or protein complex. The StructMAn server is available at http://structman.mpi-inf.mpg.de.
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Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.