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BMC Biotechnology

, 13:80

Genome technology and molecular diagnostics

Abstract

BackgroundGene 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.

ResultsWe 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.

ConclusionsGenes 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.

KeywordsCell markers High-throughput gene expression Cell isolation Proof-of concept Electronic supplementary materialThe online version of this article doi:10.1186-1472-6750-13-80 contains supplementary material, which is available to authorized users.

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Autor: Miguel A Andrade-Navarro - Femina Kanji - Carmen G Palii - Marjorie Brand - Harold Atkins - Carol Perez-Iratxeta

Fuente: https://link.springer.com/







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