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Authors: Jan Kalina 1 and Anna Schlenker 2

Affiliations: 1 Institute of Computer Science and Academy of Sciences of the Czech Republic, Czech Republic ; 2 First Faculty of Medicine, Charles University in Prague, Faculty of Biomedical Engineering and Czech Technical University in Prague, Czech Republic

Keyword(s): Microarray, Robust Image Analysis, Noise, Outlying Measurements, Background Effect.

Related Ontology Subjects/Areas/Topics: Bioimaging ; Biomedical Engineering ; Image Processing Methods

Abstract: Microarray images in molecular genetics are heavily contaminated by noise and outlying measurements. This paper is devoted to analysis of Illumina BeadChip microarray images, primarily to their low-level preprocessing. We point out that standard image analysis procedures, which are implemented in the beadarray package of BioConductor software, are highly sensitive to contamination by severe noise and outliers. Therefore, the habitually used methodology does not discover many of the outliers. We illustrate this on real data and show that the standard background correction method may actually amplify the noise in the image. A robust image analysis tailor-made for this type of microarray images is highly desirable. We explain principles and show preliminary results of our robust alternative to the standard approach, which aims to be robust to noise and outliers in each its step.

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Paper citation in several formats:
Kalina, J. and Schlenker, A. (2015). Robust Image Analysis of BeadChip Microarrays. In Proceedings of the International Conference on Bioimaging (BIOSTEC 2015) - BIOIMAGING; ISBN 978-989-758-072-7; ISSN 2184-4305, SciTePress, pages 89-94. DOI: 10.5220/0005246900890094

@conference{bioimaging15,
author={Jan Kalina. and Anna Schlenker.},
title={Robust Image Analysis of BeadChip Microarrays},
booktitle={Proceedings of the International Conference on Bioimaging (BIOSTEC 2015) - BIOIMAGING},
year={2015},
pages={89-94},
publisher={SciTePress},
organization={INSTICC},
doi={10.5220/0005246900890094},
isbn={978-989-758-072-7},
issn={2184-4305},
}

TY - CONF

JO - Proceedings of the International Conference on Bioimaging (BIOSTEC 2015) - BIOIMAGING
TI - Robust Image Analysis of BeadChip Microarrays
SN - 978-989-758-072-7
IS - 2184-4305
AU - Kalina, J.
AU - Schlenker, A.
PY - 2015
SP - 89
EP - 94
DO - 10.5220/0005246900890094
PB - SciTePress

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