Accurate proteome-wide missense variant effect prediction with AlphaMissense
The vast majority of missense variants observed in the human genome are of unknown
clinical significance. We present AlphaMissense, an adaptation of AlphaFold fine-tuned on …
clinical significance. We present AlphaMissense, an adaptation of AlphaFold fine-tuned on …
Rhapsody: predicting the pathogenicity of human missense variants
Motivation The biological effects of human missense variants have been studied
experimentally for decades but predicting their effects in clinical molecular diagnostics …
experimentally for decades but predicting their effects in clinical molecular diagnostics …
Genome-wide prediction of disease variant effects with a deep protein language model
Predicting the effects of coding variants is a major challenge. While recent deep-learning
models have improved variant effect prediction accuracy, they cannot analyze all coding …
models have improved variant effect prediction accuracy, they cannot analyze all coding …
[PDF][PDF] Quantitative missense variant effect prediction using large-scale mutagenesis data
Large datasets describing the quantitative effects of mutations on protein function are
becoming increasingly available. Here, we leverage these datasets to develop Envision …
becoming increasingly available. Here, we leverage these datasets to develop Envision …
[PDF][PDF] Improved pathogenicity prediction for rare human missense variants
The success of personalized genomic medicine depends on our ability to assess the
pathogenicity of rare human variants, including the important class of missense variation …
pathogenicity of rare human variants, including the important class of missense variation …
Predicting the functional, molecular, and phenotypic consequences of amino acid substitutions using hidden Markov models
The rate at which nonsynonymous single nucleotide polymorphisms (ns SNP s) are being
identified in the human genome is increasing dramatically owing to advances in whole …
identified in the human genome is increasing dramatically owing to advances in whole …
Regional missense constraint improves variant deleteriousness prediction
Given increasing numbers of patients who are undergoing exome or genome sequencing, it
is critical to establish tools and methods to interpret the impact of genetic variation. While the …
is critical to establish tools and methods to interpret the impact of genetic variation. While the …
Cross-protein transfer learning substantially improves disease variant prediction
Background Genetic variation in the human genome is a major determinant of individual
disease risk, but the vast majority of missense variants have unknown etiological effects …
disease risk, but the vast majority of missense variants have unknown etiological effects …
The evaluation of tools used to predict the impact of missense variants is hindered by two types of circularity
DG Grimm, CA Azencott, F Aicheler, U Gieraths… - Human …, 2015 - Wiley Online Library
Prioritizing missense variants for further experimental investigation is a key challenge in
current sequencing studies for exploring complex and Mendelian diseases. A large number …
current sequencing studies for exploring complex and Mendelian diseases. A large number …
Congruency in the prediction of pathogenic missense mutations: state-of-the-art web-based tools
S Castellana, T Mazza - Briefings in bioinformatics, 2013 - academic.oup.com
A remarkable degree of genetic variation has been found in the protein-encoding regions of
DNA through deep sequencing of samples obtained from thousands of subjects from several …
DNA through deep sequencing of samples obtained from thousands of subjects from several …