Performance of computational tools in evaluating the functional impact of laboratory-induced amino acid mutations

VE Gray, KR Kukurba, S Kumar - Bioinformatics, 2012 - academic.oup.com
Site-directed mutagenesis is frequently used by scientists to investigate the functional impact
of amino acid mutations in the laboratory. Over 10 000 such laboratory-induced mutations …

Mutation@ A Glance: an integrative web application for analysing mutations from human genetic diseases

A Hijikata, R Raju, S Keerthikumar… - DNA …, 2010 - academic.oup.com
Although mutation analysis serves as a key part in making a definitive diagnosis about a
genetic disease, it still remains a time-consuming step to interpret their biological …

mmCSM-PPI: predicting the effects of multiple point mutations on protein–protein interactions

CHM Rodrigues, DEV Pires… - Nucleic Acids Research, 2021 - academic.oup.com
Protein–protein interactions play a crucial role in all cellular functions and biological
processes and mutations leading to their disruption are enriched in many diseases. While a …

Ranking insertion, deletion and nonsense mutations based on their effect on genetic information

A Zia, AM Moses - BMC bioinformatics, 2011 - Springer
Background Genetic variations contribute to normal phenotypic differences as well as
diseases, and new sequencing technologies are greatly increasing the capacity to identify …

The SAAP pipeline and database: tools to analyze the impact and predict the pathogenicity of mutations

NS Al-Numair, ACR Martin - BMC genomics, 2013 - Springer
Background Understanding and predicting the effects of mutations on protein structure and
phenotype is an increasingly important area. Genes for many genetically linked diseases …

Physicochemical feature-based classification of amino acid mutations

B Shen, J Bai, M Vihinen - Protein Engineering, Design & …, 2008 - academic.oup.com
A huge quantity of gene and protein sequences have become available during the post-
genomic era, and information about genetic variations, including amino acid substitutions …

Identification of pathogenic missense mutations using protein stability predictors

L Gerasimavicius, X Liu, JA Marsh - Scientific Reports, 2020 - nature.com
Attempts at using protein structures to identify disease-causing mutations have been
dominated by the idea that most pathogenic mutations are disruptive at a structural level …

Predicting the functional impact of protein mutations: application to cancer genomics

B Reva, Y Antipin, C Sander - Nucleic acids research, 2011 - academic.oup.com
As large-scale re-sequencing of genomes reveals many protein mutations, especially in
human cancer tissues, prediction of their likely functional impact becomes important …

Mechismo: predicting the mechanistic impact of mutations and modifications on molecular interactions

MJ Betts, Q Lu, YY Jiang, A Drusko… - Nucleic acids …, 2015 - academic.oup.com
Systematic interrogation of mutation or protein modification data is important to identify sites
with functional consequences and to deduce global consequences from large data sets …

[HTML][HTML] dms-view: Interactive visualization tool for deep mutational scanning data

SK Hilton, J Huddleston, A Black, K North… - Journal of open …, 2020 - ncbi.nlm.nih.gov
The high-throughput technique of deep mutational scanning (DMS) has recently made it
possible to experimentally measure the effects of all amino-acid mutations to a protein …