Publications
2024
- Elshani, Mustafa, Hazem Abdullah, Ying Zhang, Alexander Laird, Peter Mullen, and David J. Harrison
Long-read Spatial Transcriptomic Profiling of Patient-derived ccRCC Tumoroids Reveals Heterogeneity in Isoform and Gene Expression
bioRxiv - Gordienko, Yuri, Maksym Shulha, Yuriy Kochura, Oleksandr Rokovyi, Vladyslav Taran, Oleg Alienin, Sergii Stirenko
Multimodal Metadata Augmentation for Federated Learning in Medical Applications
Springer Lecture Notes in Networks and Systems - Harrison, David J., In Hwa Um, Georg Wolflein, Raffaele De Filippis
Use of High-Plex Data Reveals Novel Insights into the Tumour Microenvironment of Clear Cell Renal Cell Carcinoma
Cancers 2022, 14(21), 5387 - Khmelnytskyi, Arsenii, Sergii Stirenko, and Yuri Gordienko
Hybrid Neural Networks for Medical Image Classification
Proceedings of 4th International Conference on Artificial Intelligence and Smart Energy - Scarpato, Noemi; Riondino, Silvia; Nourbakhsh, Aria; Roselli, Mario; Ferroni, Patrizia; Guadagni, Fiorella; Zanzotto, Fabio Massimo
Drug recommendation ranking for personalized medicine using outcomes of retrospective cancer patients
Expert Systems with Applications - Wölflein, Georg, In Hwa Um, David Harrison, Ognjen Arandjelović
Whole slide images and patches of clear cell renal cell carcinoma counterstained with multiple immunofluorescence for Hoechst, CD3, and CD8
BioImage Archive - Zickuhr, Greice M., In Hwa Um, Alexander Laird, David J. Harrison, and Alison L. Dickson
DESI-MSI-guided exploration of metabolic-phenotypic relationships reveals a correlation between PI 38:3 and proliferating cells in clear cell renal cell carcinoma via single-section co-registration of multimodal imaging
Analytical and Bioanalytical Chemistry - Zickuhr, Greice Michele, In Hwa Um, Alexander Laird, David J. Harrison, and Alison L. Dickson
Spatial Mass Spectrometry with Whole Slide Multiplex Immunofluorescence in Clear Cell Renal Cell Carcinoma
BioImage Archive
2023
- Anwana, Tima Otu, Katarzyna Barud, Michael Cepic, Emily Johnson, Max Königseder, and Marie-Catherine Wagner
Consent and Retrospective Data Collection
The Law and Ethics of Data Sharing in Health Sciences. Perspectives in Law, Business and Innovation. - Barud, Katarzyna et al.
Digital health innovations - Good practice guide for obtaining consent for the use of personal health information for research and innovations
CEN Workshop Agreement 17933. - Georges Bedran et al.
Unraveling the glycosylated immunopeptidome with HLA-Glyco
Nat Commun 14, 3461 (2023). - Dovrolis, Nikolas, Hector Katifelis, Stamatiki Grammatikaki, Roubini Zakopoulou, Aristotelis Bamias, Michalis. V. Karamouzis, and Kyriakos Souliotis and Maria Gazouli
Inflammation and Immunity Gene Expression Patterns and Machine Learning Approaches in Association with Response to Immune-Checkpoint Inhibitors-Based Treatments in Clear Cell Renal Carcinoma
Cancers - Elshani, Mustafa, In Hwa Um, Steve Leung, Paul A. Reynolds, Alex Chapman, Mary Kudsy, and David J. Harrison
Transcription Factor NFE2L1 Decreases in Glomerulonephropathies after Podocyte Damage
Cells 2023, 12(17), 2165. - Gordienko, Yuri, Maksym Shulha, Yuriy Kochura, Oleksandr Rokovyi, Oleg Alienin, Vladyslav Taran, and Sergii Stirenko
Ensemble Knowledge Distillation for Edge Intelligence in Medical Applications
Studies in Computational Intelligence, vol 1100 - Grammatikaki, Stamatiki et al.
The Role of HIF1-related Genes and Non-coding RNAs Expression in Clear Cell Renal Cell Carcinoma
In vivo (Athens, Greece) vol. 37,3 (2023): 1103-1110. - Grammatikaki, Stamatiki et al.
An Overview of Epigenetics in Clear Cell Renal Cell Carcinoma
In vivo (Athens, Greece) vol. 37,1 (2023): 1-10. - Kostiukevych, Kostiantyn et al.
Hierarchy of Hybrid Deep Neural Networks for Physical Action Classification by Brain-Computer Interface
Modern Machine Learning Technologies and Data Science Workshop MoMLeT&DS 2022 - Shlianin, Vladyslav, Yuri Gordienko and Sergii Stirenko
Link Prediction Method in Graph Objects by Auto Encoding in Graph Neural Networks
Modern Machine Learning Technologies and Data Science Workshop MoMLeT&DS 2022. Leiden, The Netherlands, November 25-26, 2022. - Shulha, Maksym, Yuri Gordienko, and Sergii Stirenko
Deep Learning with Metadata Augmentation for Classification of Diabetic Retinopathy Level
Proceedings of Third International Conference on Sustainable Expert Systems . Lecture Notes in Networks and Systems, vol 587. Springer, Singapore. - Shulha, Maksym, Yuri Gordienko, and Sergii Stirenko
Impact of Multimodal Model Complexity on Classification of Diabetic Retinopathy Level
Computational Intelligence, Data Analytics and Applications. ICCIDA 2022. Lecture Notes in Networks and Systems, vol 643. Springer, Cham. - Silva, Marta Contreiras, Daniel Faria, and Catia Pesquita
Matching Multiple Ontologies to Build a Knowledge Graph for Personalized Medicine
ESWC 2022, May 29 - June 2, Hersonisoss, Greece. - Statkevych, Roman , Yuri Gordienko, and Sergii Stirenko
Expansion Rate Parametrization and K-Fold Based Inference with U-Net Neural Networks for Multiclass Medical Image Segmentation
Lecture Notes in Computer Science, vol 14125 - Tomko, Maryna et al.
Multi-label Classification of Cervix Types with Image Size Optimization for Cervical Cancer Prescreening by Deep Learning
Inventive Computation and Information Technologies. Lecture Notes in Networks and Systems, vol 563. Springer, Singapore. - Traversa Pietro, Guilherme Ferraz de Arruda, Alexei Vazquez, and Yamir Moreno
Robustness and Complexity of Directed and Weighted Metabolic Hypergraphs
Entropy 2023, 25(11), 1537. - Wölfein, Georg, In Hwa Um, David Harrison, and Ognjen Arandjelovic
HoechstGAN: Virtual Lymphocyte Staining Using Generative Adversarial Networks
IEEE/CVF Winter Conference on Applications of Computer Vision (WACV) 2023, https://wacv2023.thecvf.com/. - Wölflein, Georg, In Hwa Um, David J. Harrison, and Ognjen Arandjelović
Whole-Slide Images and Patches of Clear Cell Renal Cell Carcinoma Tissue Sections Counterstained with Hoechst 33342, CD3, and CD8 Using Multiple Immunofluorescence
Data. 2023; 8(2):40. - Zickuhr, Greice M., In Hwa Um, Alexander Laird, David J Harrison, and Alison L Dickson
Spatial Metabolomics co-registered with Multiplex Phenotyping for the Evaluation of Human Kidney Tissue
BioRxiv
2022
- Bedran, Georges, Tongjie Wang, Dominika Pankanin, et al.
A comprehensive library of canonical and non-canonical MHC class I antigens for cancer vaccine development
Biorxiv - Contreiras Silva, Marta, Patrícia Eugénio, Daniel Faria, and Catia Pesquita
Ontologies and Knowledge Graphs in Oncology Research
Cancers - Contreiras Silva, Marta, Daniel Faria and Catia Pesquita
Matching Multiple Ontologies to Build a Knowledge Graph for Personalized Medicine
ESWC 2022, May 29 - June 2, Hersonisson (GR) - Contreiras Silva, Marta, Daniel Faria and Catia Pesquita
Extending AgreementMakerLight to Perform Holistic Ontology Matching
ESWC 2022, May 29 - June 2, Hersonisson (GR) - De Filippis, Raffaele et al.
Use of High-Plex Data Reveals Novel Insights into the Tumour Microenvironment of Clear Cell Renal Cell Carcinoma
Cancers 14, no. 21: 5387 - Gordienko, Nikita, Oleksandr Rokovyi, Yuri Gordienko, and Sergii Stirenko
Hybrid Convolutional, Recurrent and Attention-based Architectures of Deep Neural Networks for Classification of Human-Computer Interaction by Electroencephalography
Multimodality in Advanced Interaction Environments. HCII 2022. Lecture Notes in Computer Science, vol 13519. Springer, Cham. - Kostiukevych, Kostiantyn, Yuri Gordienko, Nikita Gordienko, Oleksandr Rokovyi, and Sergii Stirenko
Hierarchy of Hybrid Deep Neural Networks for Physical Action Classification by Brain-Computer Interface
Modern Machine Learning Technologies and Data Science Workshop MoMLeT&DS 2022. Leiden, The Netherlands, November 25-26, 2022. - Oholtsov, Illia, Yuri Gordienko, and Sergii Stirenko
Effect of Small Dataset Quality on Deep Neural Network Performance for Lyme Disease Classification
In: Ranganathan, G., Fernando, X., Piramuthu, S. (eds) Soft Computing for Security Applications. Advances in Intelligent Systems and Computing, vol 1428. Springer, Singapore. - Shlianin, Vladyslav, Yuri Gordienko, and Sergii Stirenko
Link Prediction Method in Graph Objects by Auto Encoding in Graph Neural Networks
Modern Machine Learning Technologies and Data Science Workshop MoMLeT&DS 2022. Leiden, The Netherlands, November 25-26, 2022. - Statkevych, Roman, Yuri Gordienko, Sergii Stirenko
Improving U-Net Kidney Glomerulus Segmentation with Fine-Tuning, Dataset Randomization and Augmentations
In: Hu, Z., Dychka, I., Petoukhov, S., He, M. (eds) Advances in Computer Science for Engineering and Education. ICCSEEA 2022. Lecture Notes on Data Engineering and Communications Technologies, vol 134. Springer, Cham. - Yakimenko, Yurii, Sergii Stirenko, Dimitri Koroliouk, Yuri Gordienko, and Fabio Massimo Zanzotto
Implementation of Personalized Medicine by Artificial Intelligence Platform
In: Ranganathan, G., Fernando, X., Piramuthu, S. (eds) Soft Computing for Security Applications. Advances in Intelligent Systems and Computing, vol 1428. Springer, Singapore.
2021
- Guerreiro, Ana, Catia Pesquita, and Daniel Faria
VOWLMap: Graph-based Ontology Alignment Visualization and Editing
CEUR Workshop Proceedings - Lima, Beatriz, Daniel Faria, and Catia Pesquita
Pattern-Guided Association Rule Mining for Complex Ontology Alignment
CEUR Workshop Proceedings