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

Autorzy: 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
Opublikowane w: 2024
Wydawca: Cold Spring Harbor Laboratory
DOI: 10.1101/2023.07.17.548676

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

Autorzy: Laura Balbi, Rita Sousa, Pedro Cotovio, Catia Pesquita
Opublikowane w: 2024
Wydawca: 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

Autorzy: 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
Opublikowane w: Numer 1, 2025
Wydawca: Zenodo
DOI: 10.5281/zenodo.14643248

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

Autorzy: Greice Michele Zickuhr, In Hwa Um, Alexander Laird, David J. Harrison, Alison L. Dickson
Opublikowane w: BioStudies Database, 2024
Wydawca: 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

Autorzy: 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
Opublikowane w: 2025
Wydawca: 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

Autorzy: 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
Opublikowane w: Numer 1, 2023
Wydawca: Zenodo
DOI: 10.5281/zenodo.8214477

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

Autorzy: Mustafa Elshani, Hazem Abdullah, Ying Zhang, Alexander Laird, Peter Mullen, David J. Harrison
Opublikowane w: 2024
Wydawca: 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

Autorzy: Georges Bedran, Tongjie Wang, Dominika Pankanin, et al.
Opublikowane w: bioRxiv, 2022
Wydawca: bioRxiv
DOI: 10.1101/2022.01.13.475872

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

Autorzy: Greice M Zickuhr, In Hwa Um, Alexander Laird, David J Harrison, Alison L Dickson
Opublikowane w: bioRxiv 2023.11.10.566529, 2023
Wydawca: 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

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

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

Autorzy: Catarina Canastra, Cátia Pesquita
Opublikowane w: 2025
Wydawca: Cornell University
DOI: 10.48550/arxiv.2504.08445

Neuro-Symbolic AI in Life Sciences

Autorzy: Robert Hoehndorf, Catia Pesquita, Fernando Zhapa-Camacho
Opublikowane w: Frontiers in Artificial Intelligence and Applications, Handbook on Neurosymbolic AI and Knowledge Graphs, 2025
Wydawca: IOS Press
DOI: 10.3233/faia250239

Deep Learning with Metadata Augmentation for Classification of Diabetic Retinopathy Level

Autorzy: Shulha, M., Gordienko, Y., Stirenko, S.
Opublikowane w: Proceedings of Third International Conference on Sustainable Expert Systems . Lecture Notes in Networks and Systems, 2023, Strona(/y) 613–630, ISBN 978-981-19-7873-9
Wydawca: Springer

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

Autorzy: Tomko, M., Pavliuchenko, M., Pavliuchenko, I., Gordienko, Y., Stirenko, S.
Opublikowane w: Inventive Computation and Information Technologies. Lecture Notes in Networks and Systems, Numer vol 563, 2023, Strona(/y) 885–902, ISBN 978-981-19-7401-4
Wydawca: Springer

Consent and Retrospective Data Collection

Autorzy: Anwana, T.O., Barud, K., Cepic, M., Johnson, E., Königseder, M., Wagner, MC
Opublikowane w: The Law and Ethics of Data Sharing in Health Sciences, 2023, Strona(/y) 99–125, ISBN 978-981-99-6539-7
Wydawca: Springer
DOI: 10.1007/978-981-99-6540-3_7

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

Autorzy: Statkevych, R., Gordienko, Y., Stirenko, S.
Opublikowane w: Advances in Computer Science for Engineering and Education. ICCSEEA 2022. Lecture Notes on Data Engineering and Communications Technologies, Numer vol 134, 2022, Strona(/y) 488–498, ISBN 978-3-031-04811-1
Wydawca: 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

Autorzy: Statkevych, R., Gordienko, Y., Stirenko, S.
Opublikowane w: Artificial Intelligence and Soft Computing. ICAISC 2023. Lecture Notes in Computer Science, Numer vol 14125, 2023, Strona(/y) 251–262, ISBN 978-3-031-42504-2
Wydawca: Springer
DOI: 10.1007/978-3-031-42505-9_22

Implementation of Personalized Medicine by Artificial Intelligence Platform

Autorzy: Yakimenko, Y., Stirenko, S., Koroliouk, D., Gordienko, Y., Zanzotto, F.M.
Opublikowane w: Soft Computing for Security Applications. Advances in Intelligent Systems and Computing, Numer vol 1428, 2022, Strona(/y) 597–611, ISBN 978-981-19-3589-3
Wydawca: Springer
DOI: 10.1007/978-981-19-3590-9_46

Ensemble Knowledge Distillation for Edge Intelligence in Medical Applications

Autorzy: Gordienko, Y. et al.
Opublikowane w: Advancements in Knowledge Distillation: Towards New Horizons of Intelligent Systems. Studies in Computational Intelligence, Numer vol 1100, 2023, Strona(/y) 135–168, ISBN 978-3-031-32094-1
Wydawca: Springer
DOI: 10.1007/978-3-031-32095-8_5

Impact of Multimodal Model Complexity on Classification of Diabetic Retinopathy Level

Autorzy: Shulha, M., Gordienko, Y., Stirenko, S.
Opublikowane w: Computational Intelligence, Data Analytics and Applications. ICCIDA 2022. Lecture Notes in Networks and Systems, Numer vol 643, 2023, Strona(/y) 168–180, ISBN 978-3-031-27098-7
Wydawca: Springer

Hybrid Neural Networks for Medical Image Classification

Autorzy: Arsenii Khmelnytskyi, Sergii Stirenko, Yuri Gordienko
Opublikowane w: Information Systems Engineering and Management, Proceedings of 4th International Conference on Artificial Intelligence and Smart Energy, 2024, Strona(/y) 462-474
Wydawca: Springer Nature Switzerland
DOI: 10.1007/978-3-031-61471-2_35

Multimodal Metadata Augmentation for Federated Learning in Medical Applications

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

VOWLMap: graph-based ontology alignment visualization and editing

Autorzy: Ana Guerreiro, Catia Pesquita, and Daniel Faria
Opublikowane w: International Semantic Web Conference (ISWC) 2021: Posters, Demos, and Industry Tracks., Numer Vol-2980, 2021
Wydawca: CEUR Workshop Proceedings

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

Autorzy: Kostiantyn Kostiukevych, Yuri Gordienko, Nikita Gordienko, Oleksandr Rokovyi, and Sergii Stirenko
Opublikowane w: MoMLeT+DS 2022: 4th International Workshop on Modern Machine Learning Technologies and Data Science, 2023
Wydawca: CEUR Workshop Proceedings

Results of the Ontology Alignment Evaluation Initiative 2021

Autorzy: 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
Opublikowane w: 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, Numer 1, 2021
Wydawca: CEUR Workshop Proceedings

Results of the Ontology Alignment Evaluation Initiative 2024

Autorzy: 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
Opublikowane w: ISSN: 1613-0073, Numer 1, 2024
Wydawca: 19th International Workshop on Ontology Matching
DOI: 10.5445/ir/1000179469

HoechstGAN: Virtual Lymphocyte Staining Using Generative Adversarial Networks

Autorzy: Georg Wölflein, In Hwa Um, David J Harrison, Ognjen Arandjelović
Opublikowane w: 2023
Wydawca: arxiv
DOI: 10.48550/arxiv.2210.06909

Extending agreementmakerlight to perform holistic ontology matching

Autorzy: Marta Contreiras Silva, Daniel Faria, and Catia Pesquit
Opublikowane w: 2022
Wydawca: 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

Autorzy: Barud, Katarzyna et al.
Opublikowane w: CEN Workshop Agreement 17933, 2023
Wydawca: CEN

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

Autorzy: Silva, Marta C.; Nunes, Susana; Balbi, Laura; Rodrigues, Ana Filipa; Pesquita, Catia
Opublikowane w: Numer 1, 2025
Wydawca: ESWC Project Networking
DOI: 10.5281/zenodo.15609794

Pattern-Guided Association Rule Mining for Complex Ontology Alignment

Autorzy: Beatriz Lima, Daniel Faria, and Catia Pesquita
Opublikowane w: International Semantic Web Conference (ISWC) 2021: Posters, Demos, and Industry Tracks, Numer Vol-2980, 2021
Wydawca: CEUR Workshop Proceedings

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

Autorzy: Gordienko, Nikita, Oleksandr Rokovyi, Yuri Gordienko, and Sergii Stirenko
Opublikowane w: 2022
Wydawca: Springer

Results of the ontology alignment evaluation initiative 2023

Autorzy: 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
Opublikowane w: 18th International Workshop on Ontology Matching (OM 2023), Numer 1, 2023
Wydawca: INRIA.HAL.SCIENCE Web Portal

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

Autorzy: Vladyslav Shlianin, Yuri Gordienko, and Sergii Stirenko1
Opublikowane w: 2023
Wydawca: CEUR Workshop Proceedings

Matching Multiple Ontologies to Build aKnowledge Graph for Personalized Medicine

Autorzy: Marta Contreiras Silva , Daniel Faria, and Catia Pesquit
Opublikowane w: 2023
Wydawca: 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

Autorzy: Nikita Gordienko, Oleksandr Rokovyi, Yuri Gordienko & Sergii Stirenko
Opublikowane w: HCI International 2022 - Late Breaking Papers. Multimodality in Advanced Interaction Environments, Numer 1, 2022
Wydawca: 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

Autorzy: Nikita Gordienko, Oleksandr Rokovyi, Yuri Gordienko & Sergii Stirenko
Opublikowane w: HCI International 2022 - Late Breaking Papers. Multimodality in Advanced Interaction Environments, 2022, Strona(/y) 453–468, ISBN 978-3-031-17617-3
Wydawca: Springer
DOI: 10.1007/978-3-031-17618-0_32

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

Autorzy: Kostiantyn Kostiukevych, Yuri Gordienko, Nikita Gordienko, Oleksandr Rokovyi, and Sergii Stirenko
Opublikowane w: 2022
Wydawca: CEUR Workshop Proceedings

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

Autorzy: Oholtsov, I., Gordienko, Y., Stirenko, S
Opublikowane w: Soft Computing for Security Applications. Advances in Intelligent Systems and Computing, Numer vol 1428, 2022, Strona(/y) 561–573, ISBN 978-981-19-3589-3
Wydawca: Springer

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

Autorzy: Dario Onorati, Leonardo Ranaldi, Aria Nourbakhsh, Arianna Patrizi, Elena Sofia Ruzzetti, Michele Mastromattei, Francesca Fallucchi, Fabio Massimo Zanzotto
Opublikowane w: 2023 IEEE International Conference on Web Intelligence and Intelligent Agent Technology (WI-IAT), 2024, Strona(/y) 111-118
Wydawca: IEEE
DOI: 10.1109/wi-iat59888.2023.00021

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

Autorzy: Vladyslav Shlianin, Yuri Gordienko, and Sergii Stirenko
Opublikowane w: 2022
Wydawca: ISSN 1613-0073 CEUR Workshop Proceedings

Matching Multiple Ontologies to Build a Knowledge Graph for Personalized Medicine

Autorzy: Marta Contreiras Silva, Daniel Faria, and Catia Pesquit
Opublikowane w: 2022
Wydawca: 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

Autorzy: 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
Opublikowane w: Proceedings of the National Academy of Sciences, Numer 121, 2024, ISSN 0027-8424
Wydawca: National Academy of Sciences
DOI: 10.1073/pnas.2310479121

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

Autorzy: Noemi Scarpato, Silvia Riondino, Aria Nourbakhsh, Mario Roselli, Patrizia Ferroni, Fiorella Guadagni, Fabio Massimo Zanzotto
Opublikowane w: Expert Systems with Applications, Numer 256, 2024, Strona(/y) 124859, ISSN 0957-4174
Wydawca: 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

Autorzy: Wölflein, G.; Um, I.H.; Harrison, D.J.; Arandjelović, O.
Opublikowane w: Data, Numer 8, 40, 2023, ISSN 2306-5729
Wydawca: 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

Autorzy: HECTOR KATIFELIS, STAMATIKI GRAMMATIKAKI, ROUBINI ZAKOPOULOU, ARISTOTELIS BAMIAS, MICHALIS V. KARAMOUZIS, KONSTANTINOS STRAVODIMOS, MARIA GAZOULI
Opublikowane w: In Vivo, Numer 39, 2025, Strona(/y) 146-151, ISSN 0258-851X
Wydawca: 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

Autorzy: Yuri Gordienko, Nikita Gordienko, Vladyslav Taran, Anis Rojbi, Sergii Telenyk, Sergii Stirenko
Opublikowane w: Frontiers in Neuroinformatics, Numer 19, 2025, ISSN 1662-5196
Wydawca: Frontiers Research Foundation
DOI: 10.3389/fninf.2025.1521805

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

Autorzy: Susana Nunes, Rita T. Sousa, Catia Pesquita
Opublikowane w: Journal of Biomedical Semantics, Numer 14, 2023, ISSN 2041-1480
Wydawca: 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

Autorzy: Christopher C. T. Sng, Ashwin Adrian Kallor, Benjamin S. Simpson, Georges Bedran, Javier Alfaro, Kevin Litchfield
Opublikowane w: Frontiers in Immunology, Numer 15, 2024, ISSN 1664-3224
Wydawca: Frontiers Media SA
DOI: 10.3389/fimmu.2024.1347542

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

Autorzy: Rita T. Sousa, Sara Silva, Catia Pesquita
Opublikowane w: Computers in Biology and Medicine, Numer 170, 2024, Strona(/y) 108076, ISSN 0010-4825
Wydawca: 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

Autorzy: 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
Opublikowane w: Cell Death & Disease, Numer 14, 2023, ISSN 2041-4889
Wydawca: Nature Publishing Group
DOI: 10.1038/s41419-023-06133-z

MAPLE: metadata-driven orchestration of ontology matching

Autorzy: Manuel Fiorelli, Armando Stellato, Tiziano Lorenzetti
Opublikowane w: International Journal of Metadata, Semantics and Ontologies, Numer 17, 2025, Strona(/y) 18-39, ISSN 1744-2621
Wydawca: Inderscience Enterprises
DOI: 10.1504/ijmso.2024.145508

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

Autorzy: Maksym Zoziuk, Vittorio Colizzi, Pavlo Krysenko, Maurizio Mattei, Roberta Bernardini, Fabio Massimo Zanzotto, Stefano Marini, Dmitri Koroliouk
Opublikowane w: Current Numers in Molecular Biology, Numer 47, 2025, Strona(/y) 42, ISSN 1467-3045
Wydawca: MDPI AG
DOI: 10.3390/cimb47010042

Transcription Factor NFE2L1 Decreases in Glomerulonephropathies after Podocyte Damage

Autorzy: Elshani, M.; Um, I.H.; Leung, S.; Reynolds, P.A.; Chapman, A.; Kudsy, M.; Harrison, D.J.
Opublikowane w: Cells, Numer 12(17), 2165, 2023, ISSN 2073-4409
Wydawca: MDPI
DOI: 10.3390/cells12172165

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

Autorzy: Liangwei Yin, Pietro Traversa, Mohamed Elati, Yamir Moreno, Natalia Marek-Trzonkowska, Christophe Battail
Opublikowane w: iScience, Numer 28, 2025, Strona(/y) 113061, ISSN 2589-0042
Wydawca: 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

Autorzy: Greice M. Zickuhr, In Hwa Um, Alexander Laird, David J. Harrison, Alison L. Dickson
Opublikowane w: Analytical and Bioanalytical Chemistry, Numer 416, 2024, Strona(/y) 4015-4028, ISSN 1618-2642
Wydawca: Springer Verlag
DOI: 10.1007/s00216-024-05339-0

Unraveling the glycosylated immunopeptidome with HLA-Glyco

Autorzy: Bedran, G., Polasky, D.A., Hsiao, Y. et al.
Opublikowane w: Nature Communications, Numer 14, 3461, 2023, ISSN 2041-1723
Wydawca: Nature Publishing Group

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

Autorzy: 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
Opublikowane w: iScience, Numer 27, 2025, Strona(/y) 108903, ISSN 2589-0042
Wydawca: Elsevier BV
DOI: 10.1016/j.isci.2024.108903

Evaluating Explainable Machine Learning Models for Clinicians

Autorzy: Noemi Scarpato, Aria Nourbakhsh, Patrizia Ferroni, Silvia Riondino, Mario Roselli, Francesca Fallucchi, Piero Barbanti, Fiorella Guadagni, Fabio Massimo Zanzotto
Opublikowane w: Cognitive Computation, Numer 16, 2024, Strona(/y) 1436-1446, ISSN 1866-9956
Wydawca: Springer Verlag
DOI: 10.1007/s12559-024-10297-x

Ontologies and Knowledge Graphs in Oncology Research

Autorzy: Silva, Marta Contreiras, Patrícia Eugénio, Daniel Faria, and Catia Pesquita
Opublikowane w: Cancers 2022, Numer 14(8), 1906, 2022, ISSN 2072-6694
Wydawca: Multidisciplinary Digital Publishing Institute (MDPI)
DOI: 10.3390/cancers14081906

An Overview of Epigenetics in Clear Cell Renal Cell Carcinoma

Autorzy: STAMATIKI GRAMMATIKAKI, HECTOR KATIFELIS, AMMAD AHMAD FAROOQI, KONSTANTINOS STRAVODIMOS, MICHALIS V. KARAMOUZIS, KYRIAKOS SOULIOTIS, DIMITRIOS VARVARAS and MARIA GAZOULI
Opublikowane w: In Vivo, Numer 37 (1) 1-10, 2023, ISSN 0258-851X
Wydawca: 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

Autorzy: STAMATIKI GRAMMATIKAKI, HECTOR KATIFELIS, KONSTANTINOS STRAVODIMOS, EMMANOUIL BAKOLAS, NIKOLAOS KAVANTZAS, DIMITRA GRIGORIADOU, MARIA GAZOULI
Opublikowane w: In Vivo, Numer 37 (3) 1103-1110, 2023, ISSN 0258-851X
Wydawca: 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

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