Academic Journal
Automated cell type annotation and exploration of single-cell signaling dynamics using mass cytometry
| العنوان: | Automated cell type annotation and exploration of single-cell signaling dynamics using mass cytometry |
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| المؤلفون: | Dimitrios Kleftogiannnis, Sonia Gavasso, Benedicte Sjo Tislevoll, Nisha van der Meer, Inga K.F. Motzfeldt, Monica Hellesøy, Stein-Erik Gullaksen, Emmanuel Griessinger, Oda Fagerholt, Andrea Lenartova, Yngvar Fløisand, Jan Jacob Schuringa, Bjørn Tore Gjertsen, Inge Jonassen |
| المصدر: | iScience, Vol 27, Iss 7, Pp 110261- (2024) |
| بيانات النشر: | Elsevier |
| سنة النشر: | 2024 |
| المجموعة: | Directory of Open Access Journals: DOAJ Articles |
| مصطلحات موضوعية: | Bioinformatics, Cancer, Machine learning, Science |
| الوصف: | Summary: Mass cytometry by time-of-flight (CyTOF) is an emerging technology allowing for in-depth characterization of cellular heterogeneity in cancer and other diseases. Unfortunately, high-dimensional analyses of CyTOF data remain quite demanding. Here, we deploy a bioinformatics framework that tackles two fundamental problems in CyTOF analyses namely (1) automated annotation of cell populations guided by a reference dataset and (2) systematic utilization of single-cell data for effective patient stratification. By applying this framework on several publicly available datasets, we demonstrate that the Scaffold approach achieves good trade-off between sensitivity and specificity for automated cell type annotation. Additionally, a case study focusing on a cohort of 43 leukemia patients reported salient interactions between signaling proteins that are sufficient to predict short-term survival at time of diagnosis using the XGBoost algorithm. Our work introduces an automated and versatile analysis framework for CyTOF data with many applications in future precision medicine projects. |
| نوع الوثيقة: | article in journal/newspaper |
| اللغة: | English |
| تدمد: | 2589-0042 |
| Relation: | http://www.sciencedirect.com/science/article/pii/S258900422401486X; https://doaj.org/toc/2589-0042; https://doaj.org/article/003d137f2d7f4c8881fa8678f31e47b1 |
| DOI: | 10.1016/j.isci.2024.110261 |
| الاتاحة: | https://doi.org/10.1016/j.isci.2024.110261 https://doaj.org/article/003d137f2d7f4c8881fa8678f31e47b1 |
| رقم الانضمام: | edsbas.E232263 |
| قاعدة البيانات: | BASE |
Full Text Finder | تدمد: | 25890042 |
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| DOI: | 10.1016/j.isci.2024.110261 |