Rui Manuel Freitas Oliveira
AuthID: R-000-FXV
1
TITLE: Deep hybrid modeling of a HEK293 process: Combining long short-term memory networks with first principles equations Full Text
AUTHORS: Ramos, Joao R. C.; Pinto, Jose; Gil Poiares-Oliveira ; Peeters, Ludovic; Dumas, Patrick; Oliveira, Rui;
PUBLISHED: 2024, SOURCE: BIOTECHNOLOGY AND BIOENGINEERING, VOLUME: 121, ISSUE: 5
AUTHORS: Ramos, Joao R. C.; Pinto, Jose; Gil Poiares-Oliveira ; Peeters, Ludovic; Dumas, Patrick; Oliveira, Rui;
PUBLISHED: 2024, SOURCE: BIOTECHNOLOGY AND BIOENGINEERING, VOLUME: 121, ISSUE: 5
2
TITLE: SBML2HYB: a Python interface for SBML compatible hybrid modeling
AUTHORS: Pinto, Jose; Costa, Rafael S.; Alexandre, Leonardo; Ramos, Joao; Oliveira, Rui;
PUBLISHED: 2023, SOURCE: BIOINFORMATICS, VOLUME: 39, ISSUE: 1
AUTHORS: Pinto, Jose; Costa, Rafael S.; Alexandre, Leonardo; Ramos, Joao; Oliveira, Rui;
PUBLISHED: 2023, SOURCE: BIOINFORMATICS, VOLUME: 39, ISSUE: 1
3
TITLE: A General Hybrid Modeling Framework for Systems Biology Applications: Combining Mechanistic Knowledge with Deep Neural Networks under the SBML Standard
AUTHORS: Pinto, Jose; Ramos, Joao R. C.; Costa, Rafael S.; Oliveira, Rui;
PUBLISHED: 2023, SOURCE: AI, VOLUME: 4, ISSUE: 1
AUTHORS: Pinto, Jose; Ramos, Joao R. C.; Costa, Rafael S.; Oliveira, Rui;
PUBLISHED: 2023, SOURCE: AI, VOLUME: 4, ISSUE: 1
4
TITLE: Hybrid Deep Modeling of a GS115 (Mut+) Pichia pastoris Culture with State-Space Reduction
AUTHORS: Pinto, Jose; Ramos, Joao R. C.; Costa, Rafael S.; Oliveira, Rui;
PUBLISHED: 2023, SOURCE: FERMENTATION-BASEL, VOLUME: 9, ISSUE: 7
AUTHORS: Pinto, Jose; Ramos, Joao R. C.; Costa, Rafael S.; Oliveira, Rui;
PUBLISHED: 2023, SOURCE: FERMENTATION-BASEL, VOLUME: 9, ISSUE: 7
5
TITLE: Upcycling of food waste streams to valuable biopigments pyocyanin and 1-hydroxyphenazine Full Text
AUTHORS: Pantelic, Lena; Bogojevic, Sanja Skaro; Vojnovic, Sandra; Oliveira, Rui; Lazic, Jelena; Ilic Tomic, Tatjana; Milivojevic, Dusan; Nikodinovic Runic, Jasmina;
PUBLISHED: 2023, SOURCE: ENZYME AND MICROBIAL TECHNOLOGY, VOLUME: 171
AUTHORS: Pantelic, Lena; Bogojevic, Sanja Skaro; Vojnovic, Sandra; Oliveira, Rui; Lazic, Jelena; Ilic Tomic, Tatjana; Milivojevic, Dusan; Nikodinovic Runic, Jasmina;
PUBLISHED: 2023, SOURCE: ENZYME AND MICROBIAL TECHNOLOGY, VOLUME: 171
INDEXED IN: 
Scopus 
WOS
Scopus WOS6
TITLE: From Shallow to Deep Bioprocess Hybrid Modeling: Advances and Future Perspectives
AUTHORS: Agharafeie, Roshanak; Ramos, Joao Rodrigues Correia; Mendes, Jorge M.; Oliveira, Rui;
PUBLISHED: 2023, SOURCE: FERMENTATION-BASEL, VOLUME: 9, ISSUE: 10
AUTHORS: Agharafeie, Roshanak; Ramos, Joao Rodrigues Correia; Mendes, Jorge M.; Oliveira, Rui;
PUBLISHED: 2023, SOURCE: FERMENTATION-BASEL, VOLUME: 9, ISSUE: 10
7
TITLE: A General SBML Compatible Hybrid Modeling Framework: Combining Biochemical Mechanisms with Deep Neural Networks for Systems Biology Applications
AUTHORS: José Pinto; João R C Ramos; Rafael S Costa; Rui Oliveira;
PUBLISHED: 2023
AUTHORS: José Pinto; João R C Ramos; Rafael S Costa; Rui Oliveira;
PUBLISHED: 2023
8
TITLE: From Shallow to Deep Bioprocess Hybrid Modeling: Advances and Future Perspectives
AUTHORS: Roshanak Agharafeie; João Rodrigues Correia Ramos; Jorge M Mendes; Rui Oliveira;
PUBLISHED: 2023
AUTHORS: Roshanak Agharafeie; João Rodrigues Correia Ramos; Jorge M Mendes; Rui Oliveira;
PUBLISHED: 2023
9
TITLE: Indole-Containing Pyrazino[2,1-b]quinazoline-3,6-diones Active against Plasmodium and Trypanosomatids
AUTHORS: Long, S; Duarte, D; Carvalho, C; Oliveira, R; Santarem, N; Palmeira, A ; Resende, DISP; Silva, AMS; Moreira, R; Kijjoa, A; da Silva, AC ; Nogueira, F; Sousa, E ; Pinto, MMM;
PUBLISHED: 2022, SOURCE: ACS MEDICINAL CHEMISTRY LETTERS, VOLUME: 13, ISSUE: 2
AUTHORS: Long, S; Duarte, D; Carvalho, C; Oliveira, R; Santarem, N; Palmeira, A ; Resende, DISP; Silva, AMS; Moreira, R; Kijjoa, A; da Silva, AC ; Nogueira, F; Sousa, E ; Pinto, MMM;
PUBLISHED: 2022, SOURCE: ACS MEDICINAL CHEMISTRY LETTERS, VOLUME: 13, ISSUE: 2
10
TITLE: A general deep hybrid model for bioreactor systems: Combining first principles with deep neural networks
AUTHORS: Pinto, Jose; Mestre, Mykaella; Ramos, J.; Costa, Rafael S.; Striedner, Gerald; Oliveira, Rui;
PUBLISHED: 2022, SOURCE: COMPUTERS & CHEMICAL ENGINEERING, VOLUME: 165
AUTHORS: Pinto, Jose; Mestre, Mykaella; Ramos, J.; Costa, Rafael S.; Striedner, Gerald; Oliveira, Rui;
PUBLISHED: 2022, SOURCE: COMPUTERS & CHEMICAL ENGINEERING, VOLUME: 165
