Multiplexed assays of variant effects contribute to a growing genotype–phenotype atlas
Given the constantly improving cost and speed of genome sequencing, it is reasonable to
expect that personal genomes will soon be known for many millions of humans. This stands …
expect that personal genomes will soon be known for many millions of humans. This stands …
An Atlas of Variant Effects to understand the genome at nucleotide resolution
Sequencing has revealed hundreds of millions of human genetic variants, and continued
efforts will only add to this variant avalanche. Insufficient information exists to interpret the …
efforts will only add to this variant avalanche. Insufficient information exists to interpret the …
Variant interpretation: functional assays to the rescue
Classical genetic approaches for interpreting variants, such as case-control or co-
segregation studies, require finding many individuals with each variant. Because the …
segregation studies, require finding many individuals with each variant. Because the …
From variant to function in human disease genetics
T Lappalainen, DG MacArthur - Science, 2021 - science.org
Over the next decade, the primary challenge in human genetics will be to understand the
biological mechanisms by which genetic variants influence phenotypes, including disease …
biological mechanisms by which genetic variants influence phenotypes, including disease …
The power of multiplexed functional analysis of genetic variants
New technologies have recently enabled saturation mutagenesis and functional analysis of
nearly all possible variants of regulatory elements or proteins of interest in single …
nearly all possible variants of regulatory elements or proteins of interest in single …
Recommendations for the collection and use of multiplexed functional data for clinical variant interpretation
Variants of uncertain significance represent a massive challenge to medical genetics.
Multiplexed functional assays, in which the functional effects of thousands of genomic …
Multiplexed functional assays, in which the functional effects of thousands of genomic …
Variant effect prediction tools assessed using independent, functional assay-based datasets: implications for discovery and diagnostics
K Mahmood, C Jung, G Philip, P Georgeson, J Chung… - Human genomics, 2017 - Springer
Background Genetic variant effect prediction algorithms are used extensively in clinical
genomics and research to determine the likely consequences of amino acid substitutions on …
genomics and research to determine the likely consequences of amino acid substitutions on …
Scalable functional assays for the interpretation of human genetic variation
Scalable sequence–function studies have enabled the systematic analysis and cataloging of
hundreds of thousands of coding and noncoding genetic variants in the human genome …
hundreds of thousands of coding and noncoding genetic variants in the human genome …
MaveDB: an open-source platform to distribute and interpret data from multiplexed assays of variant effect
Multiplex assays of variant effect (MAVEs), such as deep mutational scans and massively
parallel reporter assays, test thousands of sequence variants in a single experiment. Despite …
parallel reporter assays, test thousands of sequence variants in a single experiment. Despite …
Integration of multiple epigenomic marks improves prediction of variant impact in saturation mutagenesis reporter assay
D Shigaki, O Adato, AN Adhikari, S Dong… - Human …, 2019 - Wiley Online Library
The integrative analysis of high‐throughput reporter assays, machine learning, and profiles
of epigenomic chromatin state in a broad array of cells and tissues has the potential to …
of epigenomic chromatin state in a broad array of cells and tissues has the potential to …