Building Data Rich Clinical Trials

Información del proyecto

CCE_DART

Identificador del acuerdo de subvención: 965397

DOI

10.3030/965397

Proyecto cerrado

Fecha de la firma de la CE 18 Enero 2021

Fecha de inicio 1 Febrero 2021

Fecha de finalización 31 Diciembre 2025

Financiado con arreglo a

• SOCIETAL CHALLENGES - Health, demographic change and well-being

Coste total

Sin datos

Aportación de la UE

€ 5 999 411,25

Coordinado por

FUNDACIO PRIVADA INSTITUT D'INVESTIGACIO ONCOLOGICA DE VALL-HEBRON (VHIO)
Spain

CORDIS proporciona enlaces a los documentos públicos y las publicaciones de los proyectos de los programas marco HORIZONTE.

Los enlaces a los documentos y las publicaciones de los proyectos del Séptimo Programa Marco, así como los enlaces a algunos tipos de resultados específicos, como conjuntos de datos y «software», se obtienen dinámicamente de OpenAIRE .

Resultado final

Documents, reports (4)

Molecular standardization

[This Deliverable is co-lead by UCAM/KI]Technical specifications for non-invasive molecular monitoring approaches, including decision making thresholds for specific clinical trial scenarios.

Quality assurance guidelines and procedures

A set of quality assurance scientific and clinical principles to be applied in all work to be developed during the project

Imaging response

[This Deliverable is co-lead by UCAM/KI]Definition of new imaging and molecular markers, based on single or combination of measurements, for patient stratification and as early readouts for tumour progression and drug response.

Imaging standardization

[this Deliverable is co-lead by UCAM/KI]Development of a pipeline for multi-scanner image data standardization, processing and radiomics feature extraction.

Websites, patent fillings, videos etc. (1)

Project website

Creation of a public project website

Demonstrators, pilots, prototypes (1)

Initial workshop

Convene Workshop 1 between academic / pharma / regulatory stakeholders and publish workshop report.

Other (1)

BoB biorepository of data (front end)

[This Deliverable is co-lead by KI/HYVE]Deployment of a cBioPortal instance to navigate the generated data adapted to the CCE-DART clinical needs.

Publicaciones

Non-peer reviewed articles (6)

Next generation clinical trials: Seamless designs and master protocols

Autores: Burdon, Abigail; Jaki, Thomas; Chen, Xijin; Mozgunov, Pavel; Zheng, Haiyan; Baird, Richard
Publicado en: arXiv, 2024, ISSN 0000-0000
Editor: arXiv
DOI: 10.48550/arxiv.241122345

Mass spectrometry-based proteomics delivers in-depth proteome profiling of FFPE lung cancer biopsies from single glass slides

Autores: Olena Berkovska, Igor Schliemann, Georgios Mermelekas, Nazlı Ezgi Özkan, Mahnaz Nikpour, Vilde Drageset Haakensen, Åslaug Helland, Janne Lehtiö, Lukas M. Orre
Publicado en: BioRxiv Preprints, 2026, ISSN 0000-0000
Editor: BioRxiv
DOI: 10.64898/2026.01.20.700495

Publishing FAIR datasets from Bioimaging repositories

Autores: Stefan Dvoretskii, Philipp Schader, Josh Moore, Marco Nolden
Publicado en: BioHackrXiv series SWAT4HCLS 2024, 2024, ISSN 0000-0000
Editor: BioHackrXiv
DOI: 10.37044/osf.io/7whtf

Relation Extraction in underexplored biomedical domains: A diversity-optimised sampling and synthetic data generation approach

Autores: Delmas, Maxime; Wysocka, Magdalena; Freitas, André
Publicado en: arXiv, Edición 3, 2023, ISSN 2331-8422
Editor: Cornell Tech
DOI: 10.48550/arxiv.2311.06364

Large Language Models, scientific knowledge and factuality: A systematic analysis in antibiotic discovery

Autores: Wysocka, Magdalena; Wysocki, Oskar; Delmas, Maxime; Mutel, Vincent; Freitas, Andre
Publicado en: Crossref, Edición 2, 2023, ISSN 2331-8422
Editor: Cornell Tech
DOI: 10.48550/arxiv.2305.17819

Multivariate group sequential tests for global summary statistics

Autores: Burdon, Abigail J.; Jaki, Thomas
Publicado en: arXiv, 2024, ISSN 0000-0000
Editor: arXiv
DOI: 10.48550/arxiv.2405.05139

Peer reviewed articles (13)

Proteogenomics of non-small cell lung cancer reveals molecular subtypes associated with specific therapeutic targets and immune evasion mechanisms

Autores: Orre et al
Publicado en: Nature Cancer, Edición 26621347, 2021, Página(s) 1224-1242, ISSN 2662-1347
Editor: Springer Nature
DOI: 10.1038/s43018-021-00259-9

Assessing the communication gap between AI models and healthcare professionals: Explainability, utility and trust in AI-driven clinical decision-making

Autores: Oskar Wysocki; Jessica Katharine Davies; Markel Vigo; Anne Caroline Armstrong; Dónal Landers; Rebecca Lee; André Freitas
Publicado en: Wysocki , O , Davies , J K , Vigo , M , Armstrong , A C , Landers , D , Lee , R & Freitas , A 2023 , ' Assessing the communication gap between AI models and healthcare professionals : Explainability, utility and trust in AI-driven clinical decision-making ' , Artificial Intelligence , vol. 316 , 103839 . https://doi.org/10.1016/j.artint.2022.103839, Edición 4, 2023, ISSN 0004-3702
Editor: Elsevier BV
DOI: 10.1016/j.artint.2022.103839

Large Language Models, scientific knowledge and factuality: A framework to streamline human expert evaluation

Autores: Magdalena Wysocka, Oskar Wysocki, Maxime Delmas, Vincent Mutel, André Freitas
Publicado en: Journal of Biomedical Informatics, Edición 158, 2025, Página(s) 104724, ISSN 1532-0464
Editor: Academic Press
DOI: 10.1016/j.jbi.2024.104724

Public and patient involvement: a survey on knowledge, experience and opinions among researchers within a precision oncology European project

Autores: Paola Mosconi; Cinzia Colombo; Pasquale Paletta; Laura Gangeri; Chiara Pellegrini; Elena Garralda; Rosalba Miceli; Cinzia Brunelli; Irene Braña; Jordi Rodon; Guillermo Villacampa; Anna Pedrola; Rodrigo Dienstmann; Bianca Pont; Júlia Lostes; Alejandro Piris; Elena Chavarria; Xenia Villalobos; Berta Colldeforns; Raquel Pérez-López; Paolo Nuciforo; David Tamborero; Janne Lehtiö; Ali Razzak; Mari
Publicado en: BMC Cancer, Vol 23, Iss 1, Pp 1-10 (2023), Edición 7, 2023, ISSN 1471-2407
Editor: BioMed Central
DOI: 10.1186/s12885-023-11262-x

Engaging European society at the forefront of cancer research and care

Autores: Celis, Julio E; Ringborg, Ulrik; heitor, manuel; Berns, Anton; Albreht, Tit; GARRALDA, Elena; Baumann, Michael
Publicado en: Scientia, Edición 2, 2023, ISSN 1574-7891
Editor: Elsevier BV
DOI: 10.1002/1878-0261.13423

Using circulating tumor DNA as a novel biomarker of efficacy for dose-finding designs in oncology

Autores: Xijin Chen, Pavel Mozgunov, Richard D Baird, Thomas Jaki
Publicado en: Statistical Methods in Medical Research, Edición 34, 2025, Página(s) 1665-1683, ISSN 0962-2802
Editor: SAGE Publications
DOI: 10.1177/09622802251350457

The Porto European cancer research summit 2021

Autores: Ulrik Ringborg , Anton Berns , Julio E Celis , Manuel Heitor , Josep Tabernero , Joachim Schüz , Michael Baumann , Rui Henrique , Matti Aapro , Partha Basu 8, Regina Beets-Tan , Benjamin Besse , Fátima Cardoso , Fátima Carneiro , Guy van den Eede , Alexander Eggermont , Stefan Fröhling , Susan Galbraith , Elena Garralda , Douglas Hanahan , Thomas Hofmarc
Publicado en: Molecular Oncology, 2021, ISSN 1574-7891
Editor: Elsevier BV
DOI: 10.1002/1878-0261.13078

Adaptive enrichment trial designs using joint modelling of longitudinal and time-to-event data

Autores: Abigail J Burdon, Richard D Baird, Thomas Jaki
Publicado en: Statistical Methods in Medical Research, Edición 33, 2025, Página(s) 2098-2114, ISSN 0962-2802
Editor: SAGE Publications
DOI: 10.1177/09622802241287711

Development of mesothelioma-specific oncolytic immunotherapy enabled by immunopeptidomics of murine and human mesothelioma tumors

Autores: Jacopo Chiaro, Gabriella Antignani, Sara Feola, Michaela Feodoroff, Beatriz Martins, Hanne Cojoc, Salvatore Russo, Manlio Fusciello, Firas Hamdan, Valentina Ferrari, Daniele Ciampi, Ilkka Ilonen, Jari Räsänen, Mikko Mäyränpää, Jukka Partanen, Satu Koskela, Jarno Honkanen, Jussi Halonen, Lukasz Kuryk, Maria Rescigno, Mikaela Grönholm, Rui M. Branca, Janne Lehtiö, Vincenzo Cerullo
Publicado en: Nature Communications, Edición 14, 2023, ISSN 2041-1723
Editor: Nature Publishing Group
DOI: 10.1038/s41467-023-42668-7

The Molecular Tumor Board Portal supports clinical decisions and automated reporting for precision oncology

Autores: Tamborero et al
Publicado en: Nature Cancer, Edición 26621347, 2022, ISSN 2662-1347
Editor: Springer Nature
DOI: 10.1038/s43018-022-00332-x

Early phase clinical trials in oncology: Realising the potential of seamless designs

Autores: Jaki, Thomas; Burdon, Abigail; Chen, Xijin; Mozgunov, Pavel; Zheng, Haiyan; Baird, Richard
Publicado en: Crossref, Edición 189, 2023, ISSN 0959-8049
Editor: Pergamon Press Ltd.
DOI: 10.1016/j.ejca.2023.05.005

A systematic review of biologically-informed deep learning models for cancer: fundamental trends for encoding and interpreting oncology data

Autores: Wysocka, Magdalena; Wysocki, Oskar; Zufferey, Marie; Landers, Dónal; Freitas, André
Publicado en: BMC Bioinformatics, Vol 24, Iss 1, Pp 1-31 (2023), Edición 1, 2023, ISSN 1471-2105
Editor: BioMed Central
DOI: 10.21203/rs.3.rs-1970036/v1

Transformers and the Representation of Biomedical Background Knowledge

Autores: Wysocki, Oskar; Zhou, Zili; O'Regan, Paul; Ferreira, Deborah; Wysocka, Magdalena; Landers, Dónal; Freitas, André
Publicado en: Crossref, Edición 2, 2023, ISSN 0891-2017
Editor: MIT Press
DOI: 10.1162/coli_a_00462

Conference proceedings (2)

SylloBio-NLI: Evaluating Large Language Models on Biomedical Syllogistic Reasoning

Autores: Magdalena Wysocka, Danilo Carvalho, Oskar Wysocki, Marco Valentino, Andre Freitas
Publicado en: Proceedings of the 2025 Conference of the Nations of the Americas Chapter of the Association for Computational Linguistics: Human Language Technologies (Volume 1: Long Papers), 2025, Página(s) 7235-7258
Editor: Association for Computational Linguistics
DOI: 10.18653/v1/2025.naacl-long.371

An LLM-based Knowledge Synthesis and Scientific Reasoning Framework for Biomedical Discovery

Autores: Oskar Wysocki, [e-mail] [e-mail], Danilo Carvalho, Alex Bogatu, [e-mail] [e-mail], [e-mail] [e-mail], [e-mail] [e-mail], Andre Freitas
Publicado en: Proceedings of the 62nd Annual Meeting of the Association for Computational Linguistics (Volume 3: System Demonstrations), 2024, Página(s) 355-364
Editor: Association for Computational Linguistics
DOI: 10.18653/v1/2024.acl-demos.34