Classification of single cell types during leukemia therapy using artificial neural networks

LYU, Minjie and Radenkovic, Milena and KESKIN, DerinB. and Brusic, Vladimir (2021) Classification of single cell types during leukemia therapy using artificial neural networks. In: 2020 IEEE International Conference on Bioinformatics and Biomedicine (BIBM), 16-19 Dec. 2020, Seoul, Korea (South).

[img]
Preview
PDF - Requires a PDF viewer such as GSview, Xpdf or Adobe Acrobat Reader
Available under Licence Creative Commons Attribution.
Download (756kB) | Preview

Abstract

We trained artificial neural network (ANN) models to classify peripheral blood mononuclear cells (PBMC) in chronic lymphoid leukemia (CLL) patients. The classification task was to determine differences in gene expression profiles in PBMC pre-treatment (with ibrutinib) and on days 30, 120, 150, and 280 after the start of treatment. Twelve datasets represented clinical samples containing a total 48,016 single cell profiles were used to train and test ANN models to classify the progress of therapy by gene expression changes. The accuracy of ANN classification was >92% in internal cross-validation. External cross-validation, using independent data sets for training and testing, showed the accuracy of classification of post-treatment PBMCs to more than 80%. To the best of our knowledge, this is the first study that has demonstrated the potential of ANNs with 10x single cell gene expression data for detecting the changes during treatment of CLL.

Item Type: Conference or Workshop Item (Paper)
Keywords: ANN, PBMC, CLL, ibrutinib, scRNAseq, Machine Learning
Schools/Departments: University of Nottingham Ningbo China > Faculty of Science and Engineering > School of Computer Science
Identification Number: https://doi.org/10.1109/BIBM49941.2020.9313319
Depositing User: Wang, Danni
Date Deposited: 10 Mar 2021 06:23
Last Modified: 10 Mar 2021 06:23
URI: http://eprints.nottingham.ac.uk/id/eprint/64683

Actions (Archive Staff Only)

Edit View Edit View