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. 2023:2584:251-268.
doi: 10.1007/978-1-0716-2756-3_13.

Identifying Gene Markers Associated with Cell Subpopulations

Maria Luisa Ratto  1 , Luca Alessandri  2
Affiliations

Identifying Gene Markers Associated with Cell Subpopulations

Maria Luisa Ratto et al. Methods Mol Biol. 2023.

Abstract

An important point of the analysis of a single-cell RNA experiment is the identification of the key elements, i.e., genes, characterizing each cell subpopulation cluster. In this chapter, we describe the use of sparsely connected autoencoder, as a tool to convert single-cell clusters in pseudo-RNAseq experiments to be used as input for differential expression analysis, and the use of COMET, as a tool to depict cluster-specific gene markers.

Keywords: Comet; Feature selection; Sparsely connected autoencoder.

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