Joel P. Arrais

发表

GeNS: a Biological Data Integration Platform

José Luís Oliveira, João Fernandes, João E. Pereira, 2009 .

Optimizing Recurrent Neural Network Architectures for De Novo Drug Design

Bernardete Ribeiro, Joel P. Arrais, Beatriz P. Santos, 2021, 2021 IEEE 34th International Symposium on Computer-Based Medical Systems (CBMS).

Improvement on Generative Adversarial Network for Targeted Drug Design

Bernardete Ribeiro, Joel P. Arrais, Maryam Abbasi, 2021, ESANN 2021 proceedings.

Diversity oriented Deep Reinforcement Learning for targeted molecule generation

Bernardete Ribeiro, Joel P. Arrais, Maryam Abbasi, 2021, Journal of Cheminformatics.

Decay Momentum for Improving Federated Learning

Bernardete Ribeiro, Catarina Silva, Joel P. Arrais, 2021, ESANN.

Multiobjective Reinforcement Learning in Optimized Drug Design

Bernardete Ribeiro, Joel P. Arrais, Beatriz P. Santos, 2021, ESANN.

SalivaPRINT Toolkit - Protein profile evaluation and phenotype stratification.

Joel P. Arrais, E. Esteves, Igor Cruz, 2018, Journal of proteomics.

The Landscape of Protein Biomarkers Proposed for Periodontal Disease: Markers with Functional Meaning

José Luís Oliveira, Nuno Rosa, Maria José Correia, 2014, BioMed research international.

A Sequence-Based Mesh Classifier for the Prediction of Protein-Protein Interactions

Joel P. Arrais, J. Oliveira, A. Dourado, 2017, 1711.04294.

Mixed-Integer Programming Model for Profiling Disease Biomarkers from Gene Expression Studies

Miguel Rocha, Joel Arrais, António Dourado, 2017, IWBBIO.

New Targets for Zika Virus Determined by Human-Viral Interactomic: A Bioinformatics Approach

Nuno Rosa, Maria José Correia, Marlene Barros, 2017, BioMed research international.

From protein-protein interactions to rational drug design: are computational methods up to the challenge?

José Luís Oliveira, Joel P Arrais, Joel P. Arrais, 2013, Current topics in medicinal chemistry.

Machine Learning Solutions Applied to Amyotrophic Lateral Sclerosis Prognosis: A Review

Joel P. Arrais, M. Dourado, Fabiano Papaiz, 2022, Frontiers in Computer Science.

Reconstructing the temporal progression of HIV-1 immune response pathways

Ziv Bar-Joseph, Joel Arrais, Siddhartha Jain, 2016, Bioinform..

Explainable deep drug–target representations for binding affinity prediction

Carlos J. V. Simões, Nelson R. C. Monteiro, Joel P. Arrais, 2022, BMC Bioinformatics.

Data Integration Solution for Organ-Specific Studies: An Application for Oral Biology

Joel P. Arrais, J. Oliveira, Pedro Lopes, 2012, BIOSTEC.

Deep generative model for therapeutic targets using transcriptomic disease-associated data - USP7 case study

Joel P. Arrais, Romina A. Guedes, Jorge A R Salvador, 2022, Briefings Bioinform..

Designing optimized drug candidates with Generative Adversarial Network

Carlos J. V. Simões, Nelson R. C. Monteiro, Joel P. Arrais, 2022, Journal of Cheminformatics.

OralCard: a bioinformatic tool for the study of oral proteome.

José Luís Oliveira, Nuno Rosa, Maria José Correia, 2013, Archives of oral biology.

SalivaPRINT Toolkit – Protein profile evaluation and phenotype

Joel P. Arrais, E. Esteves, Igor Cruz, 2021 .

CanisOme--The protein signatures of Canis lupus familiaris diseases.

Joel P. Arrais, E. Esteves, M. Fernandes, 2016, Journal of proteomics.

Computational prediction of the human-microbial oral interactome

José Luís Oliveira, Edgar D. Coelho, Joel Arrais, 2014, BMC Systems Biology.

Enchytraeus albidus Microarray: Enrichment, Design, Annotation and Database (EnchyBASE)

Joel P. Arrais, M. Amorim, S. Novais, 2012, PloS one.

Algorithms and Data Structures for Large Scale Geographic Information Systems

Joel P. Arrais, 2016 .

The Road to Personalized Medicine in Alzheimer’s Disease: The Use of Artificial Intelligence

Joel P. Arrais, I. Santana, I. Baldeiras, 2022, Biomedicines.

From the salivary proteome to the OralOme: comprehensive molecular oral biology.

José Luís Oliveira, Nuno Rosa, Maria José Correia, 2012, Archives of oral biology.

Parallel DNA pyrosequencing unveils new zebrafish microRNAs

Joel Arrais, Manuel A. S. Santos, Gabriela R. Moura, 2009, BMC Genomics.

Fighting Fire with Fire: Computational Prediction of Microbial Targets for Bacteriocins

José Luís Oliveira, Edgar D. Coelho, Joel Arrais, 2018, IWBBIO.

Exploring a Siamese Neural Network Architecture for One-Shot Drug Discovery

Bernardete Ribeiro, Luis Torres, Nelson Monteiro, 2020, 2020 IEEE 20th International Conference on Bioinformatics and Bioengineering (BIBE).

Computational Methods for the Identification of Genetic Variants in Complex Diseases

Miguel Rocha, Joel Arrais, Joel P. Arrais, 2021, PACBB.

GeneBrowser 2: an application to explore and identify common biological traits in a set of genes

José Luís Oliveira, Joel Arrais, João Fernandes, 2010, BMC Bioinformatics.

Concept-based query expansion for retrieving gene related publications from MEDLINE

José Luís Oliveira, Joel Arrais, Sérgio Matos, 2010, BMC Bioinformatics.

GeneBrowser: an approach for integration and functional classification of genomic data

Manuel A. S. Santos, Bruno Santos, José Luís Oliveira, 2007 .

Softwarequery expansion for retrieving gene related publications from MEDLINE

Sérgio Matos, Joel P. Arrais, João Maia-Rodrigues, 2010 .

Metagenomic Analysis of the Saliva Microbiome with Merlin

Miguel Rocha, Joel Arrais, Pedro Barbosa, 2014, PACBB.

Large Scale Comparative Codon-Pair Context Analysis Unveils General Rules that Fine-Tune Evolution of mRNA Primary Structure

Joel Arrais, Manuel A. S. Santos, Gabriela R. Moura, 2007, PloS one.

Uncovering microbial duality within human microbiomes: A novel algorithm for the analysis of host-pathogen interactions

José Luís Oliveira, Edgar D. Coelho, Joel Arrais, 2015, 2015 37th Annual International Conference of the IEEE Engineering in Medicine and Biology Society (EMBC).

Using biomedical networks to prioritize gene–disease associations

José Luís Oliveira, Joel P. Arrais, Joel P. Arrais, 2011 .

Gene-disease prioritization through biomedical networks

Jose Luis Oliveira, Joel P. Arrais, Joel P. Arrais, 2010, Proceedings of the 10th IEEE International Conference on Information Technology and Applications in Biomedicine.

Computational methodology for predicting the landscape of the human-microbial interactome region level influence

José Luís Oliveira, Edgar D. Coelho, Joel Arrais, 2015, J. Bioinform. Comput. Biol..

NanoSen-AQM: From Sensors to Users

Bernardete Ribeiro, Alberto Cardoso, Paulo Gil, 2020, Int. J. Online Biomed. Eng..

An Online Platform For Real-Time Air Quality Monitoring

Bernardete Ribeiro, Paulo Gil, Alberto Cardoso, 2019, 2019 5th Experiment International Conference (exp.at'19).

Prediction of Cancer using Network Topological Features

José Luís Oliveira, Joel Arrais, Fernanda Brito Correia, 2016, BIOINFORMATICS.

Representation of Semantic Networks of Biomedical Terms

José Luís Oliveira, Joel Arrais, Andre Vechina, 2013, IWBBIO.

Few-shot learning via graph embeddings with convolutional networks for low-data molecular property prediction

Joel P. Arrais, B. Ribeiro, Luis Torres, 2023, Neural Computing and Applications.

Diversity oriented Deep Reinforcement Learning for targeted molecule generation

Joel P. Arrais, B Ribeiro, T Pereira, 2020, Journal of Cheminformatics.

Drug-Target Interaction Prediction: End-to-End Deep Learning Approach

Bernardete Ribeiro, Joel Arrais, Nelson R C Monteiro, 2020, IEEE/ACM Transactions on Computational Biology and Bioinformatics.

Optimizing blood–brain barrier permeation through deep reinforcement learning for de novo drug design

Joel P. Arrais, B. Ribeiro, Maryam Abbasi, 2021, Bioinform..

Ensemble-Based Methodology for the Prediction of Drug-Target Interactions

José Luís Oliveira, Edgar D. Coelho, Joel Arrais, 2016, 2016 IEEE 29th International Symposium on Computer-Based Medical Systems (CBMS).

Few-shot learning with transformers via graph embeddings for molecular property prediction

Joel P. Arrais, B. Ribeiro, Luis Torres, 2023, Expert Syst. Appl..

Interactive and coordinated visualization approaches for biological data analysis

António Cruz, Joel P Arrais, Penousal Machado, 2019, Briefings Bioinform..

On the exploitation of cloud computing in bioinformatics

Jose Luis Oliveira, Joel P. Arrais, Joel P. Arrais, 2010, Proceedings of the 10th IEEE International Conference on Information Technology and Applications in Biomedicine.

DTITR: End-to-end drug-target binding affinity prediction with transformers

Nelson R. C. Monteiro, Joel P. Arrais, J. L. Oliveira, 2022, Comput. Biol. Medicine.

Computational Discovery of Putative Leads for Drug Repositioning through Drug-Target Interaction Prediction

José Luís Oliveira, Edgar D. Coelho, Joel Arrais, 2016, PLoS Comput. Biol..

geneCommittee: a web-based tool for extensively testing the discriminatory power of biologically relevant gene sets in microarray data classification

Joel P. Arrais, J. Oliveira, F. F. Riverola, 2014, BMC Bioinformatics.

Link Integrator - A Link-based Data Integration Architecture

José Luís Oliveira, Joel Arrais, Pedro Lopes, 2009, KDIR.

Quantitative Characterization of Protein Networks of the Oral Cavity

José Luís Oliveira, Joel Arrais, Fernanda Correia Barbosa, 2013, PACBB.

On the Quantization of Recurrent Neural Networks for Smiles Generation

Joel P. Arrais, B. Ribeiro, Gabriel Falcao, 2023, ICASSP 2023 - 2023 IEEE International Conference on Acoustics, Speech and Signal Processing (ICASSP).

A Microarray Information Database

José Luís Oliveira, Joel Arrais, Manuel A. S. Santos, 2008, 2008 International Conference on Biocomputation, Bioinformatics, and Biomedical Technologies.

Interactive and coordinated visualization approaches for biological data analysis

Joel P. Arrais, Penousal Machado, António Cruz, 2019, Briefings Bioinform..

Handling Noise in Protein Interaction Networks

Edgar D. Coelho, José Luís Oliveira, Joel P. Arrais, 2019, bioRxiv.

Expanding Gene-Based PubMed Queries

José Luís Oliveira, Joel Arrais, Sérgio Matos, 2010, IWPACBB.

FSM-DDTR: End-to-end feedback strategy for multi-objective De Novo drug design using transformers

Nelson R. C. Monteiro, Joel P. Arrais, Maryam Abbasi, 2023, Comput. Biol. Medicine.

Force-Directed Timelines: Visualizing & Exploring Temporal Patterns

Joel P. Arrais, Penousal Machado, António Cruz, 2021, Big Data Res..

Exploring Time-Series Through Force-Directed Timelines

Joel P. Arrais, P. Machado, António Cruz, 2020, 2020 24th International Conference Information Visualisation (IV).

CroP - Coordinated Panel visualization for biological networks analysis

Penousal Machado, António Cruz, Joel P Arrais, 2019, Bioinform..

Interactive Network Visualization of Gene Expression Time-Series Data

Penousal Machado, Joel Arrais, António Cruz, 2018, 2018 22nd International Conference Information Visualisation (IV).

geneCommittee: a web-based tool for extensively testing the discriminatory power of biologically relevant gene sets in microarray data classification

José Luís Oliveira, Joel Arrais, Florentino Fernández Riverola, 2014, BMC Bioinformatics.

Deep Neural Network Architecture for Drug-Target Interaction Prediction

Bernardete Ribeiro, Joel Arrais, Nelson R. C. Monteiro, 2019, ICANN.