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| Item Type: | Article |
|---|---|
| Title: | A method for cell type marker discovery by high-throughput gene expression analysis of mixed cell populations |
| Creators Name: | Andrade-Navarro, M.A., Kanji, F., Palii, C.G., Brand, M., Atkins, H. and Perez-Iratxeta, C. |
| Abstract: | BACKGROUND: Gene transcripts specifically expressed in a particular cell type (cell-type specific gene markers) are useful for its detection and isolation from a tissue or other cell mixtures. However, finding informative marker genes can be problematic when working with a poorly characterized cell type, as markers can only be unequivocally determined once the cell type has been isolated. We propose a method that could identify marker genes of an uncharacterized cell type within a mixed cell population, provided that the proportion of the cell type of interest in the mixture can be estimated by some indirect method, such as a functional assay. RESULTS: We show that cell-type specific gene markers can be identified from the global gene expression of several cell mixtures that contain the cell type of interest in a known proportion by their high correlation to the concentration of the corresponding cell type across the mixtures. CONCLUSIONS: Genes detected using this high-throughput strategy would be candidate markers that may be useful in detecting or purifying a cell type from a particular biological context. We present an experimental proof-of-concept of this method using cell mixtures of various well-characterized hematopoietic cell types, and we evaluate the performance of the method in a benchmark that explores the requirements and range of validity of the approach. |
| Keywords: | Cell Markers, High-Throughput Gene Expression, Cell Isolation, Proof-of Concept |
| Source: | BMC Biotechnology |
| ISSN: | 1472-6750 |
| Publisher: | BioMed Central |
| Volume: | 13 |
| Number: | 1 |
| Page Range: | 80 |
| Date: | 3 October 2013 |
| Official Publication: | https://doi.org/10.1186/1472-6750-13-80 |
| PubMed: | View item in PubMed |
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