Title :
Summarizing Probe Intensities of Affymetrix GeneChip 3´ Expression Arrays Taking into Account Day-to-Day Variability
Author :
Magni, Paolo ; Simeone, Angela ; Healy, Sandra ; Isacchi, Antonella ; Bosotti, Roberta
Author_Institution :
Dipt. di Inf. e Sist., Univ. degli Studi di Pavia, Pavia, Italy
Abstract :
Microarray experiments are affected by several sources of variability. The paper demonstrates the major role of the day-to-day variability, it underlines the importance of a randomized block design when processing replicates over several days to avoid systematic biases and it proposes a simple algorithm that minimizes the day dependence.
Keywords :
genetics; lab-on-a-chip; probes; Affymetrix Genechip 3´ expression arrays; day dependence; day-to-day variability; microarray experiments; probe intensities; randomized block design; systematic biases; Algorithm design and analysis; Arrays; Bioinformatics; Correlation; Gene expression; Probes; Affymetrix microarray; Gene expression; experimental variability.; statistical analysis; Algorithms; Cell Line, Tumor; Cluster Analysis; Computational Biology; Gene Expression Profiling; Humans; Models, Statistical; Molecular Probes; Oligonucleotide Array Sequence Analysis; Reproducibility of Results;
Journal_Title :
Computational Biology and Bioinformatics, IEEE/ACM Transactions on
DOI :
10.1109/TCBB.2010.82
