DynaMut2: Assessing changes in stability and flexibility upon single and multiple point missense mutations

CHM Rodrigues, DEV Pires, DB Ascher - Protein Science, 2021 - Wiley Online Library
Predicting the effect of missense variations on protein stability and dynamics is important for
understanding their role in diseases, and the link between protein structure and function …

Systematic evaluation of computational tools to predict the effects of mutations on protein stability in the absence of experimental structures

Q Pan, TB Nguyen, DB Ascher… - Briefings in …, 2022 - academic.oup.com
Abstract Changes in protein sequence can have dramatic effects on how proteins fold, their
stability and dynamics. Over the last 20 years, pioneering methods have been developed to …

[HTML][HTML] Monitoring Plasmodium vivax resistance to antimalarials: Persisting challenges and future directions

MU Ferreira, TN de Sousa, GW Rangel… - International Journal for …, 2021 - Elsevier
Emerging antimalarial drug resistance may undermine current efforts to control and
eliminate Plasmodium vivax, the most geographically widespread yet neglected human …

SDM: a server for predicting effects of mutations on protein stability

AP Pandurangan, B Ochoa-Montano… - Nucleic acids …, 2017 - academic.oup.com
Here, we report a webserver for the improved SDM, used for predicting the effects of
mutations on protein stability. As a pioneering knowledge-based approach, SDM has been …

Single-Dose Tafenoquine to Prevent Relapse of Plasmodium vivax Malaria

MVG Lacerda, A Llanos-Cuentas… - … England Journal of …, 2019 - Mass Medical Soc
Abstract Background Treatment of Plasmodium vivax malaria requires the clearing of
asexual parasites, but relapse can be prevented only if dormant hypnozoites are cleared …

Frequent transmission of the Mycobacterium tuberculosis Beijing lineage and positive selection for the EsxW Beijing variant in Vietnam

KE Holt, P McAdam, PVK Thai, NTT Thuong, DTM Ha… - Nature …, 2018 - nature.com
To examine the transmission dynamics of Mycobacterium tuberculosis (Mtb) isolated from
tuberculosis patients in Ho Chi Minh City, Vietnam, we sequenced the whole genomes of …

mCSM-membrane: predicting the effects of mutations on transmembrane proteins

DEV Pires, CHM Rodrigues… - Nucleic Acids Research, 2020 - academic.oup.com
Significant efforts have been invested into understanding and predicting the molecular
consequences of mutations in protein coding regions, however nearly all approaches have …

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

DEV Pires, DB Ascher - Nucleic acids research, 2017 - academic.oup.com
Over the past two decades, several computational methods have been proposed to predict
how missense mutations can affect protein structure and function, either by altering protein …

Structure guided prediction of Pyrazinamide resistance mutations in pncA

M Karmakar, CHM Rodrigues, K Horan, JT Denholm… - Scientific reports, 2020 - nature.com
Pyrazinamide plays an important role in tuberculosis treatment; however, its use is
complicated by side-effects and challenges with reliable drug susceptibility testing …

mCSM-AB2: guiding rational antibody design using graph-based signatures

Y Myung, CHM Rodrigues, DB Ascher… - Bioinformatics, 2020 - academic.oup.com
Motivation A lack of accurate computational tools to guide rational mutagenesis has made
affinity maturation a recurrent challenge in antibody (Ab) development. We previously …