Knowledge At the Tip of Your fingers: Clinical Knowledge for Humanity

Microenvironment of metastasis reveals key predictors of PD-1 blockade response in renal cell carcinoma

Auteurs: Florian Jeanneret, Pauline Bazelle, Sarah Schoch, Catherine Pillet, In Hwa Um, Assilah Bouzit, Bertrand Evrard, Evan Seffar, Frédéric Chalmel, Javier A Alfaro, Catia Pesquita, Fabio Massimo Zanzotto, Mark Stares, Stefan N Symeonides, Alexander Laird, Jean-Alexandre Long, Jean Luc Descotes, Delphine Pflieger, David J Harrison, Odile Filhol, Håkan Axelson, Christophe Battail
Publié dans: 2024
Éditeur: Cold Spring Harbor Laboratory
DOI: 10.1101/2023.07.17.548676

Injecting domain knowledge into graph neural networks for protein-protein interactions

Auteurs: Laura Balbi, Rita Sousa, Pedro Cotovio, Catia Pesquita
Publié dans: 2024
Éditeur: Research Square Platform LLC
DOI: 10.21203/rs.3.rs-4228413/v1

Leveraging Knowledge for Explainable AI in Personalized Cancer Treatment: Challenges and Future Directions

Auteurs: Daghir-Wojtkowiak, Emilia; Alfaro, Javier; Mastromattei, Michele; Palkowski, Aleksander; Stares, Mark; Roca-Umbert, Ana; Krajnc, Andraž; Leoni, Riccardo; Boland, Anne; Nourbakhsh, Aria; Kallor, Ashwin Adrian; Ducki, Camille; Venditti, Davide; Montesano, Carla; Cipriani, Chiara; Faria, Daniel; PFLIEGER, Delphine; Zago, Elisa; Bardet, Etienne; Serrano, Filipa; Jeanneret, Florian; Alouges, Damien; L
Publié dans: Numéro 1, 2025
Éditeur: Zenodo
DOI: 10.5281/zenodo.14643248

Spatial Mass Spectrometry with Whole Slide Multiplex Immunofluorescence in Clear Cell Renal Cell Carcinoma

Auteurs: Greice Michele Zickuhr, In Hwa Um, Alexander Laird, David J. Harrison, Alison L. Dickson
Publié dans: BioStudies Database, 2024
Éditeur: EMBL-EBI
DOI: 10.6019/s-biad1346

Expanding the definition of MHC Class I peptide binding promiscuity to support vaccine discovery across cancers with CARMEN

Auteurs: Michal Mateusz Waleron, Ashwin Adrian Kallor, Aleksander Palkowski, Emilia Daghir-Wojtkowiak, Piyush Borole, Mikolaj Kocikowski, Karol Polom, Fabio Marino, Beatriz Monterde, Michele Mastromattei, Davide Venditti, Mark Stares, null null, Ashita Singh, Theodore Hupp, Christophe Battail, Alexander Laird, Catia Pesquita, Luis Zapata, Stefan N. Symeonides, Ajitha Rajan, Fabio Massimo Zanzotto, Javier A
Publié dans: 2025
Éditeur: Cold Spring Harbor Laboratory
DOI: 10.1101/2025.05.08.651510

Microenvironment of metastatic site reveals key predictors of PD-1 blockade response in renal cell carcinoma

Auteurs: Jeanneret, Florian; Bazelle, Pauline; Schoch, Sarah; Pillet, Catherine; Um, In Hwa; Bouzit, Assilah; Evrard, Bertrand; Seffar, Evan; Chalmel, Frédéric; Alfaro, Javier Antonio; Pesquita, Catia; Massimo Zanzotto, Fabio; Stares, Mark; Symeonides, Stefan; Laird, Alexander; Long, Jean Alexandre; Descotes, Jean Luc; Pflieger, Delphine; Harrison, David; Filhol, Odile; Axelson, Håkan; Battail, Christop
Publié dans: Numéro 1, 2023
Éditeur: Zenodo
DOI: 10.5281/zenodo.8214477

Long-read Spatial Transcriptomic Profiling of Patient-derived ccRCC Tumoroids Reveals Heterogeneity in Isoform and Gene Expression

Auteurs: Mustafa Elshani, Hazem Abdullah, Ying Zhang, Alexander Laird, Peter Mullen, David J. Harrison
Publié dans: 2024
Éditeur: Cold Spring Harbor Laboratory
DOI: 10.1101/2024.10.16.618643

A comprehensive library of canonical and non-canonical MHC class I antigens for cancer vaccine development

Auteurs: Georges Bedran, Tongjie Wang, Dominika Pankanin, et al.
Publié dans: bioRxiv, 2022
Éditeur: bioRxiv
DOI: 10.1101/2022.01.13.475872

Spatial Metabolomics co-registered with Multiplex Phenotyping for the Evaluation of Human Kidney Tissue

Auteurs: Greice M Zickuhr, In Hwa Um, Alexander Laird, David J Harrison, Alison L Dickson
Publié dans: bioRxiv 2023.11.10.566529, 2023
Éditeur: bioRxiv
DOI: 10.1101/2023.11.10.566529

Clear Cell Renal Cell Carcinoma Patient-Derived Tumoroids characterisation by Spatial Mass Spectrometry, Histology and Multiplex Immunofluorescence

Auteurs: Greice Michele Zickuhr, Hazem Abdullah, In Hwa Um, Alexander Laird, Peter Mullen, David J. Harrison, Alison L. Dickson
Publié dans: BioStudies Database, 2025
Éditeur: EMBL-EBI
DOI: 10.6019/s-biad1661

A Systematic Evaluation of Knowledge Graph Embeddings for Gene-Disease Association Prediction

Auteurs: Catarina Canastra, Cátia Pesquita
Publié dans: 2025
Éditeur: Cornell University
DOI: 10.48550/arxiv.2504.08445

Neuro-Symbolic AI in Life Sciences

Auteurs: Robert Hoehndorf, Catia Pesquita, Fernando Zhapa-Camacho
Publié dans: Frontiers in Artificial Intelligence and Applications, Handbook on Neurosymbolic AI and Knowledge Graphs, 2025
Éditeur: IOS Press
DOI: 10.3233/faia250239

Deep Learning with Metadata Augmentation for Classification of Diabetic Retinopathy Level

Auteurs: Shulha, M., Gordienko, Y., Stirenko, S.
Publié dans: Proceedings of Third International Conference on Sustainable Expert Systems . Lecture Notes in Networks and Systems, 2023, Page(s) 613–630, ISBN 978-981-19-7873-9
Éditeur: Springer

Multi-label Classification of Cervix Types with Image Size Optimization for Cervical Cancer Prescreening by Deep Learning

Auteurs: Tomko, M., Pavliuchenko, M., Pavliuchenko, I., Gordienko, Y., Stirenko, S.
Publié dans: Inventive Computation and Information Technologies. Lecture Notes in Networks and Systems, Numéro vol 563, 2023, Page(s) 885–902, ISBN 978-981-19-7401-4
Éditeur: Springer

Consent and Retrospective Data Collection

Auteurs: Anwana, T.O., Barud, K., Cepic, M., Johnson, E., Königseder, M., Wagner, MC
Publié dans: The Law and Ethics of Data Sharing in Health Sciences, 2023, Page(s) 99–125, ISBN 978-981-99-6539-7
Éditeur: Springer
DOI: 10.1007/978-981-99-6540-3_7

Improving U-Net Kidney Glomerulus Segmentation with Fine-Tuning, Dataset Randomization and Augmentations

Auteurs: Statkevych, R., Gordienko, Y., Stirenko, S.
Publié dans: Advances in Computer Science for Engineering and Education. ICCSEEA 2022. Lecture Notes on Data Engineering and Communications Technologies, Numéro vol 134, 2022, Page(s) 488–498, ISBN 978-3-031-04811-1
Éditeur: Springer
DOI: 10.1007/978-3-031-04812-8_42

Expansion Rate Parametrization and K-Fold Based Inference with U-Net Neural Networks for Multiclass Medical Image Segmentation

Auteurs: Statkevych, R., Gordienko, Y., Stirenko, S.
Publié dans: Artificial Intelligence and Soft Computing. ICAISC 2023. Lecture Notes in Computer Science, Numéro vol 14125, 2023, Page(s) 251–262, ISBN 978-3-031-42504-2
Éditeur: Springer
DOI: 10.1007/978-3-031-42505-9_22

Implementation of Personalized Medicine by Artificial Intelligence Platform

Auteurs: Yakimenko, Y., Stirenko, S., Koroliouk, D., Gordienko, Y., Zanzotto, F.M.
Publié dans: Soft Computing for Security Applications. Advances in Intelligent Systems and Computing, Numéro vol 1428, 2022, Page(s) 597–611, ISBN 978-981-19-3589-3
Éditeur: Springer
DOI: 10.1007/978-981-19-3590-9_46

Ensemble Knowledge Distillation for Edge Intelligence in Medical Applications

Auteurs: Gordienko, Y. et al.
Publié dans: Advancements in Knowledge Distillation: Towards New Horizons of Intelligent Systems. Studies in Computational Intelligence, Numéro vol 1100, 2023, Page(s) 135–168, ISBN 978-3-031-32094-1
Éditeur: Springer
DOI: 10.1007/978-3-031-32095-8_5

Impact of Multimodal Model Complexity on Classification of Diabetic Retinopathy Level

Auteurs: Shulha, M., Gordienko, Y., Stirenko, S.
Publié dans: Computational Intelligence, Data Analytics and Applications. ICCIDA 2022. Lecture Notes in Networks and Systems, Numéro vol 643, 2023, Page(s) 168–180, ISBN 978-3-031-27098-7
Éditeur: Springer

Hybrid Neural Networks for Medical Image Classification

Auteurs: Arsenii Khmelnytskyi, Sergii Stirenko, Yuri Gordienko
Publié dans: Information Systems Engineering and Management, Proceedings of 4th International Conference on Artificial Intelligence and Smart Energy, 2024, Page(s) 462-474
Éditeur: Springer Nature Switzerland
DOI: 10.1007/978-3-031-61471-2_35

Multimodal Metadata Augmentation for Federated Learning in Medical Applications

Auteurs: Yuri Gordienko, Maksym Shulha, Yuriy Kochura, Oleksandr Rokovyi, Vladyslav Taran, Oleg Alienin, Sergii Stirenko
Publié dans: Lecture Notes in Networks and Systems, Proceedings of Ninth International Congress on Information and Communication Technology, 2024, Page(s) 537-547
Éditeur: Springer Nature Singapore
DOI: 10.1007/978-981-97-3299-9_43

VOWLMap: graph-based ontology alignment visualization and editing

Auteurs: Ana Guerreiro, Catia Pesquita, and Daniel Faria
Publié dans: International Semantic Web Conference (ISWC) 2021: Posters, Demos, and Industry Tracks., Numéro Vol-2980, 2021
Éditeur: CEUR Workshop Proceedings

Hierarchy of Hybrid Deep Neural Networks for Physical Action Classification by Brain-Computer Interface

Auteurs: Kostiantyn Kostiukevych, Yuri Gordienko, Nikita Gordienko, Oleksandr Rokovyi, and Sergii Stirenko
Publié dans: MoMLeT+DS 2022: 4th International Workshop on Modern Machine Learning Technologies and Data Science, 2023
Éditeur: CEUR Workshop Proceedings

Results of the Ontology Alignment Evaluation Initiative 2021

Auteurs: Abd Nikooie Pour, Mina; Algergawy, Alsayed; Amardeilh, Florence; Amini, Reihaneh; Fallatah, Omaima; Faria, Daniel; Fundulaki, Irini; Harrow, Ian; Hertling, Sven; Hitzler, Pascal; Huschka, Martin; Ibanescu, Liliana; Jiménez-Ruiz, Ernesto; Karam, Naouel; Laadhar, Amir; Lambrix, Patrick; Li, Huanyu; Li, Ying; Michel, Franck; Nasr, Engy; Paulheim, Heiko; Pesquita, Catia; Portisch, Jan; Roussey, Cathe
Publié dans: Pour, M A N, Algergawy, A, Amardeilh, F, Amini, R, Fallatah, O, Faria, D, Fundulaki, I, Harrow, I, Hertling, S, Hitzler, P, Huschka, M, Ibanescu, L, Jiḿenez-Ruiz, E, Karam, N, Laadhar, A, Lambrix, P, Li, H, Li, Y, Michel, F, Nasr, E, Paulheim, H, Pesquita, C, Portisch, J, Roussey, C, Saveta, T, Shvaiko, P, Splendiani, A, Trojahn, Ć, Vatǎšcinova, J, Yaman, B, Zamaza, O & Zhou, L 2021, 'Results, Numéro 1, 2021
Éditeur: CEUR Workshop Proceedings

Results of the Ontology Alignment Evaluation Initiative 2024

Auteurs: Pour, Mina Abd Nikooie; Algergawy, Alsayed; Blomqvist, Eva; Buche, Patrice; Chen, Jiaoyan; Cotovio, Pedro Giesteira; Coulet, Adrien; Cufi, Julien; Dong, Hang; Faria, Daniel; Ferraz, Lucas; Hertling, Sven; He, Yuan; Horrocks, Ian; Ibanescu, Liliana; Jain, Dr Sarika; Jiménez-Ruiz, Ernesto; Karam, Naouel; Kraus, Felix; Lambrix, Patrick; Li, Huanyu; Li, Ying; Monnin, Pierre; Paulheim, Heiko; Pesquita
Publié dans: ISSN: 1613-0073, Numéro 1, 2024
Éditeur: 19th International Workshop on Ontology Matching
DOI: 10.5445/ir/1000179469

HoechstGAN: Virtual Lymphocyte Staining Using Generative Adversarial Networks

Auteurs: Georg Wölflein, In Hwa Um, David J Harrison, Ognjen Arandjelović
Publié dans: 2023
Éditeur: arxiv
DOI: 10.48550/arxiv.2210.06909

Extending agreementmakerlight to perform holistic ontology matching

Auteurs: Marta Contreiras Silva, Daniel Faria, and Catia Pesquit
Publié dans: 2022
Éditeur: LASIGE, Faculdade de Ciˆencias da Universidade de Lisboa, Portugal

Digital health innovations - Good practice guide for obtaining consent for the use of personal health information for research and innovations

Auteurs: Barud, Katarzyna et al.
Publié dans: CEN Workshop Agreement 17933, 2023
Éditeur: CEN

KATY — Knowledge At the Tip of Your fingers: Clinical Knowledge for Humanity

Auteurs: Silva, Marta C.; Nunes, Susana; Balbi, Laura; Rodrigues, Ana Filipa; Pesquita, Catia
Publié dans: Numéro 1, 2025
Éditeur: ESWC Project Networking
DOI: 10.5281/zenodo.15609794

Pattern-Guided Association Rule Mining for Complex Ontology Alignment

Auteurs: Beatriz Lima, Daniel Faria, and Catia Pesquita
Publié dans: International Semantic Web Conference (ISWC) 2021: Posters, Demos, and Industry Tracks, Numéro Vol-2980, 2021
Éditeur: CEUR Workshop Proceedings

Hybrid Convolutional, Recurrent and Attention-Based Architectures of Deep Neural Networks for Classification of Human-Computer Interaction by Electroencephalography

Auteurs: Gordienko, Nikita, Oleksandr Rokovyi, Yuri Gordienko, and Sergii Stirenko
Publié dans: 2022
Éditeur: Springer

Results of the ontology alignment evaluation initiative 2023

Auteurs: Pour, Mina Abd Nikooie; Algergawy, Alsayed; Buche, Patrice; Castro, Leyla Jael; Chen, Jiaoyan; Coulet, Adrien; Cufi, Julien; Dong, Hang; Fallatah, Omaima; Faria, Daniel; Fundulaki, Irini; Hertling, Sven; He, Yuan; Horrocks, Ian; Huschka, Martin; Ibanescu, Liliana; Jain, Dr Sarika; Jiménez-Ruiz, Ernesto; Karam, Naouel; Lambrix, Patrick; Li, Huanyu; Li, Ying; Monnin, Pierre; Nasr, Engy; Paulheim, H
Publié dans: 18th International Workshop on Ontology Matching (OM 2023), Numéro 1, 2023
Éditeur: INRIA.HAL.SCIENCE Web Portal

Link Prediction Method in Graph Objects by Auto Encoding in Graph Neural Networks

Auteurs: Vladyslav Shlianin, Yuri Gordienko, and Sergii Stirenko1
Publié dans: 2023
Éditeur: CEUR Workshop Proceedings

Matching Multiple Ontologies to Build aKnowledge Graph for Personalized Medicine

Auteurs: Marta Contreiras Silva , Daniel Faria, and Catia Pesquit
Publié dans: 2023
Éditeur: LASIGE, Faculdade de Ciˆencias da Universidade de Lisboa, Portugal

Home HCI International 2022 - Late Breaking Papers. Multimodality in Advanced Interaction Environments Conference paperHybrid Convolutional, Recurrent and Attention-Based Architectures of Deep Neural Networks for Classification of Human-Computer Interaction by Electroencephalography

Auteurs: Nikita Gordienko, Oleksandr Rokovyi, Yuri Gordienko & Sergii Stirenko
Publié dans: HCI International 2022 - Late Breaking Papers. Multimodality in Advanced Interaction Environments, Numéro 1, 2022
Éditeur: Springer Nature Link

Home HCI International 2022 - Late Breaking Papers. Multimodality in Advanced Interaction Environments Conference paperHybrid Convolutional, Recurrent and Attention-Based Architectures of Deep Neural Networks for Classification of Human-Computer Interaction by Electroencephalography

Auteurs: Nikita Gordienko, Oleksandr Rokovyi, Yuri Gordienko & Sergii Stirenko
Publié dans: HCI International 2022 - Late Breaking Papers. Multimodality in Advanced Interaction Environments, 2022, Page(s) 453–468, ISBN 978-3-031-17617-3
Éditeur: Springer
DOI: 10.1007/978-3-031-17618-0_32

Hierarchy of Hybrid Deep Neural Networks for Physical Action Classification by Brain-Computer Interface

Auteurs: Kostiantyn Kostiukevych, Yuri Gordienko, Nikita Gordienko, Oleksandr Rokovyi, and Sergii Stirenko
Publié dans: 2022
Éditeur: CEUR Workshop Proceedings

Effect of Small Dataset Quality on Deep Neural Network Performance for Lyme Disease Classification

Auteurs: Oholtsov, I., Gordienko, Y., Stirenko, S
Publié dans: Soft Computing for Security Applications. Advances in Intelligent Systems and Computing, Numéro vol 1428, 2022, Page(s) 561–573, ISBN 978-981-19-3589-3
Éditeur: Springer

The Dark Side of the Language: Syntax-Based Neural Networks Rivaling Transformers in Definitely Unseen Sentences

Auteurs: Dario Onorati, Leonardo Ranaldi, Aria Nourbakhsh, Arianna Patrizi, Elena Sofia Ruzzetti, Michele Mastromattei, Francesca Fallucchi, Fabio Massimo Zanzotto
Publié dans: 2023 IEEE International Conference on Web Intelligence and Intelligent Agent Technology (WI-IAT), 2024, Page(s) 111-118
Éditeur: IEEE
DOI: 10.1109/wi-iat59888.2023.00021

Link Prediction Method in Graph Objects by Auto Encoding in Graph Neural Networks

Auteurs: Vladyslav Shlianin, Yuri Gordienko, and Sergii Stirenko
Publié dans: 2022
Éditeur: ISSN 1613-0073 CEUR Workshop Proceedings

Matching Multiple Ontologies to Build a Knowledge Graph for Personalized Medicine

Auteurs: Marta Contreiras Silva, Daniel Faria, and Catia Pesquit
Publié dans: 2022
Éditeur: LASIGE, Faculdade de Ciencias da Universidade de Lisboa, Portugal

Targeting MYC induces lipid droplet accumulation by upregulation of HILPDA in clear cell renal cell carcinoma

Auteurs: Lourdes Sainero-Alcolado, Elisa Garde-Lapido, Marteinn Thor Snaebjörnsson, Sarah Schoch, Irene Stevens, María Victoria Ruiz-Pérez, Christine Dyrager, Vicent Pelechano, Håkan Axelson, Almut Schulze, Marie Arsenian-Henriksson
Publié dans: Proceedings of the National Academy of Sciences, Numéro 121, 2024, ISSN 0027-8424
Éditeur: National Academy of Sciences
DOI: 10.1073/pnas.2310479121

Drug recommendation ranking for personalized medicine using outcomes of retrospective cancer patients

Auteurs: Noemi Scarpato, Silvia Riondino, Aria Nourbakhsh, Mario Roselli, Patrizia Ferroni, Fiorella Guadagni, Fabio Massimo Zanzotto
Publié dans: Expert Systems with Applications, Numéro 256, 2024, Page(s) 124859, ISSN 0957-4174
Éditeur: Pergamon Press Ltd.
DOI: 10.1016/j.eswa.2024.124859

Whole-Slide Images and Patches of Clear Cell Renal Cell Carcinoma Tissue Sections Counterstained with Hoechst 33342, CD3, and CD8 Using Multiple Immunofluorescence

Auteurs: Wölflein, G.; Um, I.H.; Harrison, D.J.; Arandjelović, O.
Publié dans: Data, Numéro 8, 40, 2023, ISSN 2306-5729
Éditeur: MDPI
DOI: 10.3390/data8020040

Up-regulation of Cuproptosis-related lncRNAS in Patients Receiving Immunotherapy for Metastatic Clear Cell Renal Cell Carcinoma Indicates Progressive Disease

Auteurs: HECTOR KATIFELIS, STAMATIKI GRAMMATIKAKI, ROUBINI ZAKOPOULOU, ARISTOTELIS BAMIAS, MICHALIS V. KARAMOUZIS, KONSTANTINOS STRAVODIMOS, MARIA GAZOULI
Publié dans: In Vivo, Numéro 39, 2025, Page(s) 146-151, ISSN 0258-851X
Éditeur: International Institute of Anticancer Research
DOI: 10.21873/invivo.13812

Effect of natural and synthetic noise data augmentation on physical action classification by brain–computer interface and deep learning

Auteurs: Yuri Gordienko, Nikita Gordienko, Vladyslav Taran, Anis Rojbi, Sergii Telenyk, Sergii Stirenko
Publié dans: Frontiers in Neuroinformatics, Numéro 19, 2025, ISSN 1662-5196
Éditeur: Frontiers Research Foundation
DOI: 10.3389/fninf.2025.1521805

Multi-domain knowledge graph embeddings for gene-disease association prediction

Auteurs: Susana Nunes, Rita T. Sousa, Catia Pesquita
Publié dans: Journal of Biomedical Semantics, Numéro 14, 2023, ISSN 2041-1480
Éditeur: Springer Science and Business Media LLC
DOI: 10.1186/s13326-023-00291-x

Untranslated regions (UTRs) are a potential novel source of neoantigens for personalised immunotherapy

Auteurs: Christopher C. T. Sng, Ashwin Adrian Kallor, Benjamin S. Simpson, Georges Bedran, Javier Alfaro, Kevin Litchfield
Publié dans: Frontiers in Immunology, Numéro 15, 2024, ISSN 1664-3224
Éditeur: Frontiers Media SA
DOI: 10.3389/fimmu.2024.1347542

Explaining protein–protein interactions with knowledge graph-based semantic similarity

Auteurs: Rita T. Sousa, Sara Silva, Catia Pesquita
Publié dans: Computers in Biology and Medicine, Numéro 170, 2024, Page(s) 108076, ISSN 0010-4825
Éditeur: Pergamon Press Ltd.
DOI: 10.1016/j.compbiomed.2024.108076

A new scaffold-free tumoroid model provides a robust preclinical tool to investigate invasion and drug response in Renal Cell Carcinoma

Auteurs: Irinka Séraudie, Catherine Pillet, Beatrice Cesana, Pauline Bazelle, Florian Jeanneret, Bertrand Evrard, Frédéric Chalmel, Assilah Bouzit, Christophe Battail, Jean-Alexandre Long, Jean Luc Descotes, Claude Cochet, Odile Filhol
Publié dans: Cell Death & Disease, Numéro 14, 2023, ISSN 2041-4889
Éditeur: Nature Publishing Group
DOI: 10.1038/s41419-023-06133-z

MAPLE: metadata-driven orchestration of ontology matching

Auteurs: Manuel Fiorelli, Armando Stellato, Tiziano Lorenzetti
Publié dans: International Journal of Metadata, Semantics and Ontologies, Numéro 17, 2025, Page(s) 18-39, ISSN 1744-2621
Éditeur: Inderscience Enterprises
DOI: 10.1504/ijmso.2024.145508

Plant miRNAs for Improved Gene Regulation in a Wide Range of Human Cancers

Auteurs: Maksym Zoziuk, Vittorio Colizzi, Pavlo Krysenko, Maurizio Mattei, Roberta Bernardini, Fabio Massimo Zanzotto, Stefano Marini, Dmitri Koroliouk
Publié dans: Current Numéros in Molecular Biology, Numéro 47, 2025, Page(s) 42, ISSN 1467-3045
Éditeur: MDPI AG
DOI: 10.3390/cimb47010042

Transcription Factor NFE2L1 Decreases in Glomerulonephropathies after Podocyte Damage

Auteurs: Elshani, M.; Um, I.H.; Leung, S.; Reynolds, P.A.; Chapman, A.; Kudsy, M.; Harrison, D.J.
Publié dans: Cells, Numéro 12(17), 2165, 2023, ISSN 2073-4409
Éditeur: MDPI
DOI: 10.3390/cells12172165

Sample-specific network analysis identifies gene co-expression patterns of immunotherapy response in clear cell renal cell carcinoma

Auteurs: Liangwei Yin, Pietro Traversa, Mohamed Elati, Yamir Moreno, Natalia Marek-Trzonkowska, Christophe Battail
Publié dans: iScience, Numéro 28, 2025, Page(s) 113061, ISSN 2589-0042
Éditeur: Elsevier BV
DOI: 10.1016/j.isci.2025.113061

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

Auteurs: Greice M. Zickuhr, In Hwa Um, Alexander Laird, David J. Harrison, Alison L. Dickson
Publié dans: Analytical and Bioanalytical Chemistry, Numéro 416, 2024, Page(s) 4015-4028, ISSN 1618-2642
Éditeur: Springer Verlag
DOI: 10.1007/s00216-024-05339-0

Unraveling the glycosylated immunopeptidome with HLA-Glyco

Auteurs: Bedran, G., Polasky, D.A., Hsiao, Y. et al.
Publié dans: Nature Communications, Numéro 14, 3461, 2023, ISSN 2041-1723
Éditeur: Nature Publishing Group

Cancer selective cell death induction by a bivalent CK2 inhibitor targeting the ATP site and the allosteric αD pocket

Auteurs: Alexandre Bancet, Rita Frem, Florian Jeanneret, Angélique Mularoni, Pauline Bazelle, Caroline Roelants, Jean-Guy Delcros, Jean-François Guichou, Catherine Pillet, Isabelle Coste, Toufic Renno, Christophe Battail, Claude Cochet, Thierry Lomberget, Odile Filhol, Isabelle Krimm
Publié dans: iScience, Numéro 27, 2025, Page(s) 108903, ISSN 2589-0042
Éditeur: Elsevier BV
DOI: 10.1016/j.isci.2024.108903

Evaluating Explainable Machine Learning Models for Clinicians

Auteurs: Noemi Scarpato, Aria Nourbakhsh, Patrizia Ferroni, Silvia Riondino, Mario Roselli, Francesca Fallucchi, Piero Barbanti, Fiorella Guadagni, Fabio Massimo Zanzotto
Publié dans: Cognitive Computation, Numéro 16, 2024, Page(s) 1436-1446, ISSN 1866-9956
Éditeur: Springer Verlag
DOI: 10.1007/s12559-024-10297-x

Ontologies and Knowledge Graphs in Oncology Research

Auteurs: Silva, Marta Contreiras, Patrícia Eugénio, Daniel Faria, and Catia Pesquita
Publié dans: Cancers 2022, Numéro 14(8), 1906, 2022, ISSN 2072-6694
Éditeur: Multidisciplinary Digital Publishing Institute (MDPI)
DOI: 10.3390/cancers14081906

An Overview of Epigenetics in Clear Cell Renal Cell Carcinoma

Auteurs: STAMATIKI GRAMMATIKAKI, HECTOR KATIFELIS, AMMAD AHMAD FAROOQI, KONSTANTINOS STRAVODIMOS, MICHALIS V. KARAMOUZIS, KYRIAKOS SOULIOTIS, DIMITRIOS VARVARAS and MARIA GAZOULI
Publié dans: In Vivo, Numéro 37 (1) 1-10, 2023, ISSN 0258-851X
Éditeur: International Institute of Anticancer Research
DOI: 10.21873/invivo.13049

The Role of HIF1-related Genes and Non-coding RNAs Expression in Clear Cell Renal Cell Carcinoma

Auteurs: STAMATIKI GRAMMATIKAKI, HECTOR KATIFELIS, KONSTANTINOS STRAVODIMOS, EMMANOUIL BAKOLAS, NIKOLAOS KAVANTZAS, DIMITRA GRIGORIADOU, MARIA GAZOULI
Publié dans: In Vivo, Numéro 37 (3) 1103-1110, 2023, ISSN 0258-851X
Éditeur: International Institute of Anticancer Research
DOI: 10.21873/invivo.13185

Prompting is not all you need Evaluating GPT-4 performance on a real-world ontology alignment use case

Auteurs: Giulio Macilenti, Armando Stellato, Manuel Fiorelli
Publié dans: Procedia Computer Science, Numéro 246, 2025, Page(s) 1289-1298, ISSN 1877-0509
Éditeur: Elsevier BV
DOI: 10.1016/j.procs.2024.09.557

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