Identification of deleterious mutations within three human genomes

S Chun, JC Fay�- Genome research, 2009 - genome.cshlp.org
Each human carries a large number of deleterious mutations. Together, these mutations
make a significant contribution to human disease. Identification of deleterious mutations�…

Understanding human disease mutations through the use of interspecific genetic variation

MP Miller, S Kumar�- Human molecular genetics, 2001 - academic.oup.com
Data on replacement mutations in genes of disease patients exist in a variety of online
resources. In addition, genome sequencing projects and individual gene sequencing efforts�…

[HTML][HTML] Deleterious-and disease-allele prevalence in healthy individuals: insights from current predictions, mutation databases, and population-scale resequencing

Y Xue, Y Chen, Q Ayub, N Huang, EV Ball…�- The American Journal of�…, 2012 - cell.com
We have assessed the numbers of potentially deleterious variants in the genomes of
apparently healthy humans by using (1) low-coverage whole-genome sequence data from�…

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�…

A probabilistic disease-gene finder for personal genomes

M Yandell, C Huff, H Hu, M Singleton, B Moore…�- Genome�…, 2011 - genome.cshlp.org
VAAST (the Variant Annotation, Analysis & Search Tool) is a probabilistic search tool for
identifying damaged genes and their disease-causing variants in personal genome�…

[HTML][HTML] Analysis of missense variants in the human genome reveals widespread gene-specific clustering and improves prediction of pathogenicity

M Quinodoz, VG Peter, K Cisarova…�- The American Journal of�…, 2022 - cell.com
We used a machine learning approach to analyze the within-gene distribution of missense
variants observed in hereditary conditions and cancer. When applied to 840 genes from the�…

LIST-S2: taxonomy based sorting of deleterious missense mutations across species

N Malhis, M Jacobson, SJM Jones…�- Nucleic acids�…, 2020 - academic.oup.com
The separation of deleterious from benign mutations remains a key challenge in the
interpretation of genomic data. Computational methods used to sort mutations based on�…

CADD: predicting the deleteriousness of variants throughout the human genome

P Rentzsch, D Witten, GM Cooper…�- Nucleic acids�…, 2019 - academic.oup.com
Abstract Combined Annotation-Dependent Depletion (CADD) is a widely used measure of
variant deleteriousness that can effectively prioritize causal variants in genetic analyses�…

Interpreting missense variants: comparing computational methods in human disease genes CDKN2A, MLH1, MSH2, MECP2, and tyrosinase (TYR)

PA Chan, S Duraisamy, PJ Miller, JA Newell…�- Human�…, 2007 - Wiley Online Library
The human genome contains frequent single‐basepair variants that may or may not cause
genetic disease. To characterize benign vs. pathogenic missense variants, numerous�…

[HTML][HTML] Assessment of computational methods for predicting the effects of missense mutations in human cancers

F Gnad, A Baucom, K Mukhyala, G Manning, Z Zhang�- BMC genomics, 2013 - Springer
Background Recent advances in sequencing technologies have greatly increased the
identification of mutations in cancer genomes. However, it remains a significant challenge to�…