Douglas E. V. Pires

According to our database, Douglas E. V. Pires authored at least 52 papers between 2008 and 2024.

Collaborative distances:

• Dijkstra number of five.
• Erdős number of four.

2024

Large scale paired antibody language models.

Henry Kenlay, Frédéric A. Dreyer, Aleksandr Kovaltsuk, Dom Miketa, Douglas Pires, Charlotte M. Deane

CoRR, 2024

2023

Data-driven overdiagnosis definitions: A scoping review.

Prabodi Senevirathna, Douglas E. V. Pires, Daniel Capurro

J. Biomed. Informatics, November, 2023

DDMut: predicting effects of mutations on protein stability using deep learning.

Yunzhuo Zhou, Qisheng Pan, Douglas E. V. Pires, Carlos H. M. Rodrigues, David B. Ascher

Nucleic Acids Res., July, 2023

epitope1D: accurate taxonomy-aware B-cell linear epitope prediction.

Bruna Moreira da Silva, David B. Ascher, Douglas E. V. Pires

Briefings Bioinform., May, 2023

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

Raghad Al-Jarf, Simon Tang, Douglas E. V. Pires, David B. Ascher

J. Chem. Inf. Model., January, 2023

Developing a deep learning natural language processing algorithm for automated reporting of adverse drug reactions.

Christopher McMaster, Julia Chan, David F. L. Liew, Elizabeth Su, Albert G. Frauman, Wendy W. Chapman, Douglas E. V. Pires

J. Biomed. Informatics, January, 2023

Automating reward function configuration for drug design.

Marius Urbonas, Temitope Ajileye, Paul Gainer, Douglas Pires

CoRR, 2023

Explainable Machine Learning for ICU Readmission Prediction.

Alex G. C. de Sá, Daniel Gould, Anna Fedyukova, Mitchell Nicholas, Lucy Dockrell, Calvin Fletcher, David Pilcher, Daniel Capurro, David B. Ascher, Khaled El-Khawas, Douglas E. V. Pires

CoRR, 2023

AI driven B-cell Immunotherapy Design.

Bruna Moreira da Silva, David B. Ascher, Nicholas Geard, Douglas E. V. Pires

CoRR, 2023

Adapting Pretrained Language Models for Solving Tabular Prediction Problems in the Electronic Health Record.

Christopher McMaster, David F. L. Liew, Douglas E. V. Pires

CoRR, 2023

Designing an Interprofessional Online Course to Foster Learning Health Systems.

Sathana Dushyanthen, Dawn Choo, Meg Perrier, Kathleen Gray, Daniel Capurro, Douglas Pires, Brian E. Chapman, Graeme K. Hart, Kit Huckvale, Wendy W. Chapman, Kayley Lyons

Proceedings of the MEDINFO 2023 - The Future Is Accessible, 2023

2022

GRaSP-web: a machine learning strategy to predict binding sites based on residue neighborhood graphs.

Charles Abreu Santana, Sandro C. Izidoro, Raquel Cardoso de Melo Minardi, Jonathan D. Tyzack, António J. M. Ribeiro, Douglas E. V. Pires, Janet M. Thornton, Sabrina de Azevedo Silveira

Nucleic Acids Res., 2022

<i>cardioToxCSM</i>: A Web Server for Predicting Cardiotoxicity of Small Molecules.

Saba Iftkhar, Alex G. C. de Sá, João P. L. Velloso, Raghad Al-Jarf, Douglas E. V. Pires, David B. Ascher

J. Chem. Inf. Model., 2022

Large-scale protein-protein post-translational modification extraction with distant supervision and confidence calibrated BioBERT.

Aparna Elangovan, Yuan Li, Douglas E. V. Pires, Melissa J. Davis, Karin Verspoor

BMC Bioinform., 2022

CSM-AB: graph-based antibody-antigen binding affinity prediction and docking scoring function.

Yoochan Myung, Douglas E. V. Pires, David B. Ascher

Bioinform., 2022

epitope3D: a machine learning method for conformational B-cell epitope prediction.

Bruna Moreira da Silva, Yoochan Myung, David B. Ascher, Douglas E. V. Pires

Briefings Bioinform., 2022

toxCSM: comprehensive prediction of small molecule toxicity profiles.

Alex G. C. de Sá, Yangyang Long, Stephanie Portelli, Douglas E. V. Pires, David B. Ascher

Briefings Bioinform., 2022

Structural landscapes of PPI interfaces.

Carlos H. M. Rodrigues, Douglas E. V. Pires, Tom L. Blundell, David B. Ascher

Briefings Bioinform., 2022

Evaluating hierarchical machine learning approaches to classify biological databases.

Pâmela M. Rezende, Joicymara S. Xavier, David B. Ascher, Gabriel R. Fernandes, Douglas E. V. Pires

Briefings Bioinform., 2022

cropCSM: designing safe and potent herbicides with graph-based signatures.

Douglas E. V. Pires, Keith A. Stubbs, Joshua S. Mylne, David B. Ascher

Briefings Bioinform., 2022

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

Qisheng Pan, Thanh-Binh Nguyen, David B. Ascher, Douglas E. V. Pires

Briefings Bioinform., 2022

GASS-Metal: identifying metal-binding sites on protein structures using genetic algorithms.

Vinícius de Almeida Paiva, Murillo Ventura Mendonça, Sabrina de Azevedo Silveira, David B. Ascher, Douglas E. V. Pires, Sandro C. Izidoro

Briefings Bioinform., 2022

CSM-carbohydrate: protein-carbohydrate binding affinity prediction and docking scoring function.

Thanh-Binh Nguyen, Douglas E. V. Pires, David B. Ascher

Briefings Bioinform., 2022

2021

ThermoMutDB: a thermodynamic database for missense mutations.

Joicymara S. Xavier, Thanh-Binh Nguyen, Malancha Karmarkar, Stephanie Portelli, Pâmela M. Rezende, João P. L. Velloso, David B. Ascher, Douglas E. V. Pires

Nucleic Acids Res., 2021

MTR3D: identifying regions within protein tertiary structures under purifying selection.

Michael Silk, Douglas E. V. Pires, Carlos H. M. Rodrigues, Elston N. D'souza, Moshe Olshansky, Natalie Thorne, David B. Ascher

Nucleic Acids Res., 2021

mmCSM-PPI: predicting the effects of multiple point mutations on protein-protein interactions.

Carlos H. M. Rodrigues, Douglas E. V. Pires, David B. Ascher

Nucleic Acids Res., 2021

pdCSM-PPI: Using Graph-Based Signatures to Identify Protein-Protein Interaction Inhibitors.

Carlos H. M. Rodrigues, Douglas E. V. Pires, David B. Ascher

J. Chem. Inf. Model., 2021

pdCSM-cancer: Using Graph-Based Signatures to Identify Small Molecules with Anticancer Properties.

Raghad Al-Jarf, Alex G. C. de Sá, Douglas E. V. Pires, David B. Ascher

J. Chem. Inf. Model., 2021

Quantifying machine learning-induced overdiagnosis in sepsis.

Anna Fedyukova, Douglas Pires, Daniel Capurro

CoRR, 2021

A comparative analysis of sepsis digital phenotyping methods.

Anna Fedyukova, Douglas Pires, Daniel Capurro

Proceedings of the ACSW '21: 2021 Australasian Computer Science Week Multiconference, 2021

Identifying Genotype-Phenotype Correlations via Integrative Mutation Analysis.

Edward Airey, Stephanie Portelli, Joicymara S. Xavier, Yoochan Myung, Michael Silk, Malancha Karmakar, João P. L. Velloso, Carlos H. M. Rodrigues, Hardik H. Parate, Anjali Garg, Raghad Al-Jarf, Lucy Barr, Juliana A. Geraldo, Pâmela M. Rezende, Douglas E. V. Pires, David B. Ascher

Proceedings of the Artificial Neural Networks - Third Edition., 2021

2020

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

Douglas E. V. Pires, Carlos H. M. Rodrigues, David B. Ascher

Nucleic Acids Res., 2020

mmCSM-AB: guiding rational antibody engineering through multiple point mutations.

Yoochan Myung, Douglas E. V. Pires, David B. Ascher

Nucleic Acids Res., 2020

mycoCSM: Using Graph-Based Signatures to Identify Safe Potent Hits against Mycobacteria.

Douglas E. V. Pires, David B. Ascher

J. Chem. Inf. Model., 2020

EasyVS: a user-friendly web-based tool for molecule library selection and structure-based virtual screening.

Douglas E. V. Pires, Wandré N. P. Veloso, Yoochan Myung, Carlos H. M. Rodrigues, Michael Silk, Pâmela M. Rezende, Francislon Silva, Joicymara S. Xavier, João P. L. Velloso, Carlos Henrique da Silveira, David B. Ascher

Bioinform., 2020

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

Yoochan Myung, Carlos H. M. Rodrigues, David B. Ascher, Douglas E. V. Pires

Bioinform., 2020

2019

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

Carlos H. M. Rodrigues, Yoochan Myung, Douglas E. V. Pires, David B. Ascher

Nucleic Acids Res., 2019

2018

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

Carlos H. M. Rodrigues, Douglas E. V. Pires, David B. Ascher

Nucleic Acids Res., 2018

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

Carlos H. M. Rodrigues, David B. Ascher, Douglas E. V. Pires

Nucleic Acids Res., 2018

2017

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

Douglas E. V. Pires, David B. Ascher

Nucleic Acids Res., 2017

GASS-WEB: a web server for identifying enzyme active sites based on genetic algorithms.

João P. A. Moraes, Gisele L. Pappa, Douglas E. V. Pires, Sandro C. Izidoro

Nucleic Acids Res., 2017

2016

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

Douglas E. V. Pires, David B. Ascher

Nucleic Acids Res., 2016

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

Douglas E. V. Pires, David B. Ascher

Nucleic Acids Res., 2016

2015

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

Douglas E. V. Pires, Tom L. Blundell, David B. Ascher

Nucleic Acids Res., 2015

PDBest: a user-friendly platform for manipulating and enhancing protein structures.

Wellisson R. S. Gonçalves, Valdete M. Gonçalves-Almeida, Aleksander L. Arruda, Wagner Meira Jr., Carlos Henrique da Silveira, Douglas E. V. Pires, Raquel Cardoso de Melo Minardi

Bioinform., 2015

2014

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

Douglas E. V. Pires, David B. Ascher, Tom L. Blundell

Nucleic Acids Res., 2014

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

Douglas E. V. Pires, David B. Ascher, Tom L. Blundell

Bioinform., 2014

2013

aCSM: noise-free graph-based signatures to large-scale receptor-based ligand prediction.

Douglas E. V. Pires, Raquel Cardoso de Melo Minardi, Carlos Henrique da Silveira, Frederico F. Campos, Wagner Meira Jr.

Bioinform., 2013

2012

FPCluster: An Efficient Out-of-core Clustering Strategy without a Similarity Metric.

Douglas E. V. Pires, Luam C. Totti, Rubens E. A. Moreira, Elverton C. Fazzion, Osvaldo L. H. M. Fonseca, Wagner Meira Jr., Raquel Cardoso de Melo Minardi, Dorgival Olavo Guedes Neto

J. Inf. Data Manag., 2012

HydroPaCe: understanding and predicting cross-inhibition in serine proteases through hydrophobic patch centroids.

Valdete M. Gonçalves-Almeida, Douglas E. V. Pires, Raquel Cardoso de Melo Minardi, Carlos Henrique da Silveira, Wagner Meira Jr., Marcelo M. Santoro

Bioinform., 2012

2011

FPCluster: Uma estratégia eficiente de agrupamento out-of-core sem medida de similaridade.

Douglas E. V. Pires, Luam C. Totti, Rubens E. A. Moreira, Elverton C. Fazzion, Osvaldo L. H. M. Fonseca, Wagner Meira Jr., Raquel Cardoso de Melo Minardi, Dorgival O. Guedes

Proceedings of the XXVI Simpósio Brasileiro de Banco de Dados, 2011

2008

A Campaign-based Characterization of Spamming Strategies.

Pedro Calais, Douglas E. V. Pires, Dorgival Olavo Guedes Neto, Wagner Meira Jr., Cristine Hoepers, Klaus Steding-Jessen

Proceedings of the CEAS 2008, 2008