Wyszukiwarka
Improving platelet‐RNA‐based diagnostics: a comparative analysis of machine learning models for cancer detection and multiclass classification
Abstrakt
Liquid biopsy demonstrates excellent potential in patient management by providing a minimally invasive and cost-effective approach to detecting and monitoring cancer, even at its early stages. Due to the complexity of liquid biopsy data, machine-learning techniques are increasingly gaining attention in sample analysis, especially for multidimensional data such as RNA expression profiles. Yet, there is no agreement in the community on which methods are the most effective or how to process the data. To circumvent this, we performed a large-scale study using various machine-learning techniques. First, we took a closer look at existing datasets and filtered out some patients to assert data collection quality. The final data collection included platelet RNA samples acquired from 1397 cancer patients (17 types of cancer) and 354 asymptomatic, presumed healthy, donors. Then, we assessed an array of different machine-learning models and techniques (e.g., feature selection of RNA transcripts) in pan-cancer detection and multiclass classification. Our results show that simple logistic regression performs the best, reaching a 68% cancer detection rate at a 99% specificity level, and multiclass classification accuracy of 79.38% when distinguishing between five cancer types. In summary, by revisiting classical machine-learning models, we have exceeded the previously used method by 5% and 9.65% in cancer detection and multiclass classification, respectively. To ease further research, we open-source our code and data processing pipelines (https://gitlab.com/jopekmaksym/improving-platelet-rna-based-diagnostics), which we hope will serve the community as a strong baseline.
Cytowania
-
0
CrossRef
-
0
Web of Science
-
0
Scopus
Autorzy (7)
-
Maksym Albin Jopek
-
Anna J. Żaczek
-
Matthew T. Rondina prof.
-
Anna Supernat dr
Cytuj jako
Pełna treść
pełna treść publikacji nie jest dostępna w portalu
Słowa kluczowe
Informacje szczegółowe
- Kategoria:
- Publikacja w czasopiśmie
- Typ:
- artykuły w czasopismach
- Opublikowano w:
-
Molecular Oncology
ISSN: 1574-7891 - Język:
- angielski
- Rok wydania:
- 2024
- Opis bibliograficzny:
- Jopek M. A., Pastuszak K., Sieczczyński M., Cygert S., Żaczek A. J., Rondina M. T., Supernat A.: Improving platelet‐RNA‐based diagnostics: a comparative analysis of machine learning models for cancer detection and multiclass classification// Molecular Oncology -, (2024),
- DOI:
- Cyfrowy identyfikator dokumentu elektronicznego (otwiera się w nowej karcie) 10.1002/1878-0261.13689
- Źródła finansowania:
-
- Spoza PG, koszty OA pokryte przez współautorów
- Weryfikacja:
- Politechnika Gdańska
wyświetlono 2 razy
Publikacje, które mogą cię zainteresować
Deep Learning-Based, Multiclass Approach to Cancer Classification on Liquid Biopsy Data
- M. A. Jopek,
- K. Pastuszak,
- S. Cygert
- + 5 autorów
Diagnostic Accuracy of Liquid Biopsy in Endometrial Cancer
- M. Łukasiewicz,
- K. Pastuszak,
- S. Łapińska-Szumczyk
- + 10 autorów