Algorithms to Preprocess Microarray Image Data

Paolo Zaffino; Maria Francesca Spadea

doi:10.1007/978-1-0716-1839-4_6

Algorithms to Preprocess Microarray Image Data

Methods Mol Biol. 2022:2401:69-78. doi: 10.1007/978-1-0716-1839-4_6.

Authors

Paolo Zaffino¹, Maria Francesca Spadea²

Affiliations

¹ Department of Experimental and Clinical Medicine, Magna Graecia University of Catanzaro, Catanzaro, CZ, Italy. p.zaffino@unicz.it.
² Department of Experimental and Clinical Medicine, Magna Graecia University of Catanzaro, Catanzaro, CZ, Italy.

PMID: 34902123
DOI: 10.1007/978-1-0716-1839-4_6

Abstract

Microarray is a powerful technology that enables the monitoring of expression levels for thousands of genes simultaneously, providing scientists with a full overview about DNA and RNA investigation. The process is made of three main phases: interaction with biological samples, data extraction, and data analysis. In particular, the data extraction phase strongly relies on image processing algorithms, since the expression levels are revealed by the interaction of light with fluorescent markers. More in detail, in order to extract quantitative information from probes image, three steps are required: (1) gridding, (2) segmentation, and (3) intensity quantification. Errors in one of these steps can deeply affect the process outcome. In this chapter each of the above mentioned steps will be analyzed and discussed. Software platforms dedicated to this purpose will be reported as well.

Keywords: Image processing; Microarray.

MeSH terms

Algorithms*
Image Processing, Computer-Assisted
Oligonucleotide Array Sequence Analysis
Software