David Ascher

Insights from Spatial Measures of Intolerance to Identifying Pathogenic Variants in Developmental and Epileptic Encephalopathies

Michael Silk, Alex de Sá, Moshe Olshansky, David B Ascher

Journal article  |  2023  |  International Journal of Molecular Sciences

Developmental and epileptic encephalopathies (DEEs) are a group of epilepsies with early onset and severe symptoms that sometimes ..

CSM-Toxin: A Web-Server for Predicting Protein Toxicity.

Vladimir Morozov, Carlos HM Rodrigues, David B Ascher

Journal article  |  2023  |  Pharmaceutics

Biologics are one of the most rapidly expanding classes of therapeutics, but can be associated with a range of toxic properties. I..

embryoTox: Using Graph-Based Signatures to Predict the Teratogenicity of Small Molecules

Raghad Aljarf, Simon Tang, Douglas EV Pires, David B Ascher

Journal article  |  2023  |  JOURNAL OF CHEMICAL INFORMATION AND MODELING

Teratogenic drugs can lead to extreme fetal malformation and consequently critically influence the fetus's health, yet the teratog..

Using Graph-Based Signatures to Guide Rational Antibody Engineering.

David B Ascher, Lisa M Kaminskas, Yoochan Myung, Douglas EV Pires

Book Chapter  |  2023  |  Methods in Molecular Biology

Antibodies are essential experimental and diagnostic tools and as biotherapeutics have significantly advanced our ability to treat..

DockNet: high-throughput protein-protein interface contact prediction.

Nathan P Williams, Carlos HM Rodrigues, Jia Truong, David B Ascher, Jessica K Holien

Journal article  |  2023  |  Bioinformatics

MOTIVATION: Over 300 000 protein-protein interaction (PPI) pairs have been identified in the human proteome and targeting these is..

SARS-CoV-2 Africa dashboard for real-time COVID-19 information

Joicymara S Xavier, Monika Moir, Houriiyah Tegally, Nikita Sitharam, Wasim Abdool Karim, James E San, Joana Linhares, Eduan Wilkinson, David B Ascher, Cheryl Baxter, Douglas E Pires, Tulio de Oliveira

Journal article  |  2022  |  NATURE MICROBIOLOGY

A recurrent de novo splice site variant involving DNM1 exon 10a causes developmental and epileptic encephalopathy through a dominant-negative mechanism.

Shridhar Parthasarathy, Sarah McKeown Ruggiero, Antoinette Gelot, Fernanda C Soardi, Bethânia FR Ribeiro, Douglas EV Pires, David B Ascher, Alain Schmitt, Caroline Rambaud, Alfonso Represa, Hongbo M Xie, Laina Lusk, Olivia Wilmarth, Pamela Pojomovsky McDonnell, Olivia A Juarez, Alexandra N Grace, Julien Buratti, Cyril Mignot, Domitille Gras, Caroline Nava, et al.

Journal article  |  2022  |  Am J Hum Genet

Heterozygous pathogenic variants in DNM1 cause developmental and epileptic encephalopathy (DEE) as a result of a dominant-negative..

A structural biology community assessment of AlphaFold2 applications.

Mehmet Akdel, Douglas EV Pires, Eduard Porta Pardo, Jürgen Jänes, Arthur O Zalevsky, Bálint Mészáros, Patrick Bryant, Lydia L Good, Roman A Laskowski, Gabriele Pozzati, Aditi Shenoy, Wensi Zhu, Petras Kundrotas, Victoria Ruiz Serra, Carlos HM Rodrigues, Alistair S Dunham, David Burke, Neera Borkakoti, Sameer Velankar, Adam Frost, et al.

Journal article  |  2022  |  Nat Struct Mol Biol

Most proteins fold into 3D structures that determine how they function and orchestrate the biological processes of the cell. Recen..

kinCSM: Using graph-based signatures to predict small molecule CDK2 inhibitors

Yunzhuo Zhou, Raghad Al-Jarf, Azadeh Alavi, Thanh Binh Nguyen, Carlos HM Rodrigues, Douglas E Pires, David B Ascher

Journal article  |  2022  |  PROTEIN SCIENCE

Protein phosphorylation acts as an essential on/off switch in many cellular signaling pathways. This has led to ongoing interest i..

cardioToxCSM: A Web Server for Predicting Cardiotoxicity of Small Molecules

Saba Iftkha, Alex GC de Sa, Joao PL Velloso, Raghad Aljarf, Douglas EV Pires, David B Ascher

Journal article  |  2022  |  JOURNAL OF CHEMICAL INFORMATION AND MODELING

The design of novel, safe, and effective drugs to treat human diseases is a challenging venture, with toxicity being one of the ma..