Base editor screens for in situ mutational scanning at scale

NZ Lue, BB Liau - Molecular Cell, 2023 - cell.com
A fundamental challenge in biology is understanding the molecular details of protein
function. How mutations alter protein activity, regulation, and response to drugs is of critical …

Deep mutational scanning of proteins in mammalian cells

S Maes, N Deploey, F Peelman, S Eyckerman - Cell Reports Methods, 2023 - cell.com
Protein mutagenesis is essential for unveiling the molecular mechanisms underlying protein
function in health, disease, and evolution. In the past decade, deep mutational scanning …

Deep mutational scanning: a new style of protein science

DM Fowler, S Fields - Nature methods, 2014 - nature.com
Mutagenesis provides insight into proteins, but only recently have assays that couple
genotype to phenotype been used to assess the activities of as many as 1 million mutant …

High‐throughput discovery of functional disordered regions: investigation of transactivation domains

CNJ Ravarani, TY Erkina, G De Baets… - Molecular Systems …, 2018 - embopress.org
Over 40% of proteins in any eukaryotic genome encode intrinsically disordered regions (IDR
s) that do not adopt defined tertiary structures. Certain IDR s perform critical functions, but …

Biophysical and mechanistic models for disease-causing protein variants

A Stein, DM Fowler, R Hartmann-Petersen… - Trends in biochemical …, 2019 - cell.com
The rapid decrease in DNA sequencing cost is revolutionizing medicine and science. In
medicine, genome sequencing has revealed millions of missense variants that change …

Deep mutational scanning: assessing protein function on a massive scale

CL Araya, DM Fowler - Trends in biotechnology, 2011 - cell.com
Analysis of protein mutants is an effective means to understand their function. Protein
display is an approach that allows large numbers of mutants of a protein to be selected …

Enrich: software for analysis of protein function by enrichment and depletion of variants

DM Fowler, CL Araya, W Gerard, S Fields - Bioinformatics, 2011 - academic.oup.com
Measuring the consequences of mutation in proteins is critical to understanding their
function. These measurements are essential in such applications as protein engineering …

[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 …

PepQuery enables fast, accurate, and convenient proteomic validation of novel genomic alterations

B Wen, X Wang, B Zhang - Genome research, 2019 - genome.cshlp.org
Massively parallel or second-generation sequencing-based genomic studies continuously
identify new genomic alterations that may lead to novel protein sequences, which are …

Exploring amino acid functions in a deep mutational landscape

AS Dunham, P Beltrao - Molecular systems biology, 2021 - embopress.org
Amino acids fulfil a diverse range of roles in proteins, each utilising its chemical properties in
different ways in different contexts to create required functions. For example, cysteines form …