Ascher, David B.

DynaMut: predicting the impact of mutations on protein conformation, flexibility and stability

Rodrigues, C. H., Pires, D. E., & Ascher, D. B. (2018) · Nucleic Acids Research

Protein Structure and DynamicsEnzyme Structure and Function

Cited by 1,086

mCSM: Predicting the effects of mutations in proteins using graph-based signatures

Pires, D. E. V., Ascher, D. B., & Blundell, T. L. (2014) · Bioinformatics

Protein Structure and DynamicsGenomics and Rare Diseases

Cited by 1,066

DUET: a server for predicting effects of mutations on protein stability using an integrated computational approach

Pires, D. E. V., Ascher, D. B., & Blundell, T. L. (2014) · Nucleic Acids Research

Protein Structure and DynamicsGenomics and Rare Diseases

Cited by 932

A structural biology community assessment of AlphaFold2 applications

Akdel, M., Pires, D. E. V., Pardo, E. P., Jänes, J., Zalevsky, A. O., Mészáros, B., Bryant, P., Good, L. L., Laskowski, R. A., Pozzati, G., et al. (2022) · Nature Structural & Molecular Biology

Protein Structure and DynamicsEnzyme Structure and Function

Cited by 675

mCSM-PPI2: predicting the effects of mutations on protein–protein interactions

Rodrigues, C. H. M., Myung, Y., Pires, D. E. V., & Ascher, D. B. (2019) · Nucleic Acids Research

Machine Learning in BioinformaticsProtein Structure and Dynamics

Cited by 369

mCSM-lig: quantifying the effects of mutations on protein-small molecule affinity in genetic disease and emergence of drug resistance

Pires, D. E. V., Blundell, T. L., & Ascher, D. B. (2016) · Scientific Reports

Computational Drug Discovery MethodsProtein Structure and Dynamics

Cited by 143

mCSM-AB: a web server for predicting antibody-antigen affinity changes upon mutation with graph-based signatures

Pires, D. E. V., & Ascher, D. B. (2016) · Nucleic Acids Research

vaccines and immunoinformatics approachesMonoclonal and Polyclonal Antibodies Research

Cited by 134

mCSM-NA: predicting the effects of mutations on protein-nucleic acids interactions

Pires, D. E. V., & Ascher, D. B. (2017) · Nucleic Acids Research

Protein Structure and DynamicsGenomics and Rare Diseases

Cited by 127

A structural biology community assessment of AlphaFold 2 applications

Akdel, M., Pires, D. E. V., Porta Pardo, E., Jänes, J., Zalevsky, A. O., Mészáros, B., Bryant, P., Good, L. L., Laskowski, R. A., Pozzati, G., et al. (2021) · bioRxiv (Cold Spring Harbor Laboratory)

Protein Structure and DynamicsEnzyme Structure and Function

Cited by 122

CSM-lig: a web server for assessing and comparing protein-small molecule affinities

Pires, D. E. V., & Ascher, D. B. (2016) · Nucleic Acids Research

Computational Drug Discovery MethodsProtein Structure and Dynamics

Cited by 115

In silico functional dissection of saturation mutagenesis: Interpreting the relationship between phenotypes and changes in protein stability, interactions and activity

Pires, D. E. V., Chen, J., Blundell, T. L., & Ascher, D. B. (2016) · Scientific Reports

Genomics and Rare DiseasesProtein Structure and Dynamics

Cited by 102

ThermoMutDB: a thermodynamic database for missense mutations

Xavier, J. S., Nguyen, T.-B., Karmarkar, M., Portelli, S., Rezende, P. M., Velloso, J. P. L., Ascher, D. B., & Pires, D. E. V. (2021) · Nucleic Acids Research

Protein Structure and Dynamicsthermodynamics and calorimetric analyses

Cited by 101

Platinum: a database of experimentally measured effects of mutations on structurally defined protein-ligand complexes

Pires, D. E. V., Blundell, T. L., & Ascher, D. B. (2015) · Nucleic Acids Research

Computational Drug Discovery MethodsEnzyme Structure and Function

Cited by 91

Joint genotypic and phenotypic outcome modeling improves base editing variant effect quantification

Ryu, J., Barkal, S., Yu, T., Jankowiak, M., Zhou, Y., Francoeur, M., Phan, Q. V., Li, Z., Tognon, M., Brown, L., et al. (2023) · Nature Genetics

CRISPR and Genetic EngineeringGenomics and Rare Diseases

Cited by 32

Kinact: a computational approach for predicting activating missense mutations in protein kinases

Rodrigues, C. H., Ascher, D. B., & Pires, D. E. (2018) · Nucleic Acids Research

Machine Learning in BioinformaticsGenomics and Rare Diseases

Cited by 31

Lst4, the yeast Fnip1/2 orthologue, is a DENN-family protein

Pacitto, A., Ascher, D. B., Wong, L. H., Blaszczyk, B. K., Nookala, R. K., Zhang, N., Dokudovskaya, S., Levine, T. P., & Blundell, T. L. (2015) · Open Biology

Cellular transport and secretionFungal and yeast genetics research

Cited by 28

VIVID: a web application for variant interpretation and visualisation in multidimensional analyses

Tichkule, S., Myung, Y., Naung, M. T., Ansell, B. R. E., Guy, A. J., Srivastava, N., Mehra, S., Caccio, S. M., Mueller, I., Barry, A. E., et al. (2021) · Molecular Biology and Evolution

Genomics and Rare DiseasesGenomics and Phylogenetic Studies

Cited by 11

VIVID: A Web Application for Variant Interpretation and Visualization in Multi-dimensional Analyses

Tichkule, S., Myung, Y., Naung, M. T., Ansell, B. R. E., Guy, A. J., Srivastava, N., Mehra, S., Cacciò, S. M., Mueller, I., Barry, A. E., et al. (2022) · Molecular Biology and Evolution

Genomics and Rare DiseasesGenomics and Phylogenetic Studies

Cited by 11