Please use this identifier to cite or link to this item: https://research.matf.bg.ac.rs/handle/123456789/317
Title: Single-cell mRNA Profiles in PBMC
Authors: Yang, Luning
Zhang, Yihan
Mitić, Nenad 
Keskin, Derin B.
Zhang, Guang Lan
Chitkushev, Lou
Brusic, Vladimir
Affiliations: Informatics and Computer Science 
Keywords: gene expression profiles;heat maps;machine learning;profile comparison;scRNAseq
Issue Date: 16-Dec-2020
Related Publication(s): Proceedings - 2021 IEEE International Conference on Bioinformatics and Biomedicine, BIBM 2021
Abstract: 
We developed a method for building gene expression profiles from single-cell gene expression matrices. We named these profiles the 'single-cell-derived-class' or SCDC profiles. They represent characteristic patterns of gene expressions of the types and subtypes of cells derived from single-cell transcriptome experiments. We deployed this method on classes and subclasses of peripheral blood mononuclear cells (PBMC). We used 47 human single-cell transcriptomics (SCT) data sets representing various classes, subclasses, and sample processing conditions. From comparisons of these profiles we found that they are highly reproducible, even when derived from unrelated studies as long as the processing steps are identical. The most similar profiles are those that are minimally processed. Cell sorting using FACS, cell enrichment, or fixing in methanol make profiles distinct from those derived from normal healthy samples. Our results suggest that approximately 50-200 cells are sufficient for building a useful SCDC profile.
URI: https://research.matf.bg.ac.rs/handle/123456789/317
ISBN: 9781728162157
DOI: 10.1109/BIBM49941.2020.9313213
Appears in Collections:Research outputs

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