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João Correia is the co-founder and head of cheminformatics development at OmniumAI, as well as an invited teaching assistant at the Catholic University of Portugal in Braga. He earned his Ph.D. in Informatics from the University of Minho in 2024, his Master’s in Bioinformatics from the same institution in 2018, and his Bachelor’s in Bioengineering from the University of Trás-os-Montes e Alto Douro in 2016. His research focuses on developing artificial intelligence approaches for chemical data.
Identification

Personal identification

Full name
João Filipe Silva Correia

Citation names

  • Correia, João

Author identifiers

Ciência ID
7A14-E57B-6C35
ORCID iD
0000-0001-5190-4825
Google Scholar ID
JhT55LQAAAAJ
Researcher Id
rid96249
Scopus Author Id
58472400800

Email addresses

  • jfscorreia95@gmail.com (Personal)

Knowledge fields

  • Exact Sciences - Computer and Information Sciences - Bioinformatics

Languages

Language Speaking Reading Writing Listening Peer-review
Portuguese Proficiency (C2) Proficiency (C2) Proficiency (C2) Proficiency (C2)
English Advanced (C1) Advanced (C1) Advanced (C1) Advanced (C1)
Education
Degree Classification
2019/10/01 - 2024/12/20
Concluded
 Programa Doutoral em Informática (Doutoramento)
Universidade do Minho Centro de Engenharia Biológica, Portugal
"DeepRetro: a computational framework for retrosynthesis and pathway design towards optimizing compound bioproduction" (THESIS/DISSERTATION)
2018
Concluded
 Bioinformática (Mestrado)
Universidade do Minho Escola de Engenharia, Portugal
"HIV-TB-Host Protein Interaction Network" (THESIS/DISSERTATION)
 18
2016
Concluded
 Bioengenharia (Licenciatura)
Universidade de Trás-os-Montes e Alto Douro Escola de Ciências da Vida e do Ambiente, Portugal
"n/a" (THESIS/DISSERTATION)
 15
Affiliation

Science

Category
Host institution 		Employer
2022/10/07 - 2022/11/05 Visiting Researcher (Research) EMBL Heidelberg Genome Biology, Germany
EMBL Heidelberg Genome Biology, Germany
2019/02/01 - 2020/01/31 Researcher (Research) Universidade do Minho, Portugal
Universidade do Minho Centro de Engenharia Biológica, Portugal

Teaching in Higher Education

Category
Host institution 		Employer
2025/01 - Current Invited Assistant Professor (University Teacher) Universidade Católica Portuguesa - Braga, Portugal
Universidade Católica Portuguesa - Braga, Portugal
2024/02 - 2025/01 Invited Assistant (University Teacher) Universidade Católica Portuguesa - Braga, Portugal
Universidade Católica Portuguesa - Braga, Portugal
2023/09/11 - 2024/03/10 Invited Assistant (University Teacher) Universidade do Minho, Portugal

Others

Category
Host institution 		Employer
2024/05/15 - Current Head of Cheminformatics Development OmniumAI - Inteligência Artificial e Ciências de Dados, Portugal
Projects

Grant

Designation Funders
2020/02/01 - 2024/03/31 DeepRetro: a computational framework for retrosynthesis and pathway design towards optimizing compound bioproduction
101784260
PhD Student Fellow
Universidade do Minho, Portugal
 Fundação para a Ciência e a Tecnologia
Concluded
2019/02/01 - 2020/01/31 Development of machine learning-based tools for the selection and design of chemical compounds
814408
Research Fellow
Universidade do Minho Centro de Engenharia Biológica, Portugal
 Horizon 2020
Concluded

Contract

Designation Funders
2024/05/15 - Current Green Computing - Optimization of AutoML Processes
16/C16-i02/2023
Researcher
OmniumAI - Inteligência Artificial e Ciências de Dados, Portugal
Ongoing
Outputs

Publications

Conference paper
  1. João Correia; Vítor Pereira; Miguel Rocha. "Combining Evolutionary Algorithms with Reaction Rules Towards Focused Molecular Design". 2023.
    10.1145/3583131.3590413
  2. João Correia; Rafael Carreira; Vitor Pereira; Miguel Rocha. "Predicting the number of biochemical transformations needed to synthesize a compound". 2022.
    10.1109/ijcnn55064.2022.9892124
  3. Joao Capela; João Correia; Vitor Pereira; Miguel Rocha. "Development of Deep Learning approaches to predict relationships between chemical structures and sweetness". 2022.
    10.1109/ijcnn55064.2022.9891992
  4. Delora Baptista; João Correia; Bruno Pereira; Miguel Rocha. "A Comparison of Different Compound Representations for Drug Sensitivity Prediction". 2021.
    10.1007/978-3-030-86258-9_15
  5. Tiago Sousa; João Correia; Vitor Pereira; Miguel Rocha. "Combining Multi-objective Evolutionary Algorithms with Deep Generative Models Towards Focused Molecular Design". 2021.
    10.1007/978-3-030-72699-7_6
  6. João Correia; Tiago Resende; Delora Baptista; Miguel Rocha. "Artificial Intelligence in Biological Activity Prediction". 2019.
    10.1007/978-3-030-23873-5_20
Conference poster
  1. Correia, João; Capela, João; Pereira, Vítor; Rocha, Miguel. "DeepMol: a python-based machine and deep learning framework for drug discovery". Paper presented in XII Bioinformatics Open Days, 2023.
Journal article
  1. Correia, João; Capela, João; Rocha, Miguel. "Deepmol: an automated machine and deep learning framework for computational chemistry". Journal of Cheminformatics 16 1 (2024): https://doi.org/10.1186/s13321-024-00937-7.
    Published • 10.1186/s13321-024-00937-7
  2. Delora Baptista; João Correia; Bruno Pereira; Miguel Rocha. "Evaluating molecular representations in machine learning models for drug response prediction and interpretability". Journal of Integrative Bioinformatics 0 0 (2022): https://doi.org/10.1515%2Fjib-2022-0006.
    10.1515/jib-2022-0006
  3. Tiago Sousa; João Correia; Vítor Pereira; Miguel Rocha. "Generative Deep Learning for Targeted Compound Design". Journal of Chemical Information and Modeling 61 11 (2021): 5343-5361. https://doi.org/10.1021%2Facs.jcim.0c01496.
    10.1021/acs.jcim.0c01496
Thesis / Dissertation
  1. "DeepRetro: A computational framework for retrosynthesis and pathway design towards optimizing compound bioproduction". PhD, 2024.
  2. "HIV-TB-Host Protein Interaction Network". Master, 2018.

Other

Software
  1. Correia, João; Capela, João; Rocha, Miguel. "Deepmol: an automated machine and deep learning framework for computational chemistry". Universidade do Minho. GitHub / Pypi. 2024.
  2. Correia, João; Rocha, Miguel. "BioCatalyzer: a rule-based tool to predict compound metabolism". Universidade do Minho. GitHub / Pypi. 2024.
  3. Correia, João; Pereira, Vítor; Rocha, Miguel. "ReactEA: Combining Evolutionary Algorithms With Reaction Rules Towards Focused Molecular Design". Universidade do Minho. GitHub / Pypi. 2023.
Spin-off company
  1. 2021. Omniumai - Inteligência Artificial e Ciências de Dados, Lda. https://www.omniumai.com/home.
Activities

Oral presentation

Presentation title Event name
Host (Event location)
2023/07 Combining Evolutionary Algorithms with Reaction Rules Towards Focused Molecular Design The Genetic and Evolutionary Computation Conference (GECCO) 2023
2022/07 Predicting the number of biochemical transformations needed to synthesize a compound International Joint Conference on Neural Networks (IJCNN) 2022
2019/11/21 WP3 - Chemical Synthesis of New Products - Shikifactory100 Data Science Portugal - #64
(Braga, Portugal)
2019/06/28 Artificial Intelligence in Biological Activity Prediction PACBB 2019 : 13th International Conference on Practical Applications of Computational Biology & Bioinformatics
(Ávila, Spain)

Event organisation

Event name
Type of event (Role) 		Institution / Organization
2021/07 - 2021/07 S2M2: "Summer School in Metabolic Modeling" (2021/07 - 2021/07)
2018/03 - 2018/03 VII Bioinformatics Open Days (2018/03 - 2018/03)

Event participation

Activity description
Type of event 		Event name
Institution / Organization
2023/03 - 2023/03 Conducted a workshop titled 'Introduction to Chemoinformatics using DeepMol' at the XII Bioinformatics Open Days, held at the University of Minho, Braga, Portugal, in 2023 XII Bioinformatics Open Days
2023/02/06 - 2023/02/06 Invited lecturer for the "A begginer-friendly introduction to Python" class of the Bioinformatics in Heath Sciences course on Ferbruary 6th 2023.
2021/04 - 2021/04 Conducted a workshop titled 'Introduction to Chemoinformatics' at the X Bioinformatics Open Days, held at the University of Minho, Braga, Portugal, in 2021 X Bioinformatics Open Days

Association member

Society Organization name Role
2020/01/01 - 2020/12/31 NEBIUM - Núcleo de Estudos de Bioinformática da Universidade do Minho Presidente do Conselho Fiscal

Course / Discipline taught

Academic session Degree Subject (Type) Institution / Organization
2024/09 - 2024/12 Deep Learning - Degree in Applied Data Science (Licenciatura) Universidade Católica Portuguesa - Braga, Portugal
2024/09 - 2024/12 Natural Language Processing - Degree in Applied Data Science (Licenciatura) Universidade Católica Portuguesa - Braga, Portugal
2024/09 - 2024/09 Technologies of Behaviour Analysis - Degree in Applied Data Science (Licenciatura) Universidade Católica Portuguesa - Braga, Portugal
2024/02 - 2024/05 Machine Learning - Degree in Applied Data Science (Licenciatura) Universidade Católica Portuguesa - Braga, Portugal
2023/09 - 2024/01 Bioinformatics Laboratory - Bioinformatics (Master) (Mestrado) Universidade do Minho, Portugal
2023/09 - 2024/01 Bioinformatics - Biomedical Engineering (Integrated Master) (Mestrado integrado) Universidade do Minho, Portugal
2023/09 - 2024/01 Intelligent Systems for Bioinformatics - Bioinformatics (Master) (Mestrado) Universidade do Minho, Portugal
2023/09/04 - 2023/09/09 Artificial Intelligence for the Life Sciences by OmniumAI (Outros) OmniumAI - Inteligência Artificial e Ciências de Dados, Portugal

Mentoring / Tutoring

Topic Student name
2019 - Current Mentoring of 11 Master's Students in AI for Computational Chemistry .