Abstract
Tiling arrays are a microarray technology currently being used for a variety of genomic and epigenomic applications, such as the mapping of transcription, DNA methylation, and histone modifications. Tiling arrays provide high-density coverage of a genome, or a genomic region, through the systematic and sequential placement of probes without regard to genome annotation. In this paper we compare the Affymetrix tiling array to the Affymetrix GeneChip® 3’ expression array and propose methods that address statistical and bioinformatic issues that accompany gene expression data that are generated from Affymetrix tiling arrays. Real data from the model organism Arabidopsis thaliana motivate this work and application.
Keywords
Microarray; tiling array; differential expression; ANOVA model
Creative Commons License
This work is licensed under a Creative Commons Attribution-Noncommercial-No Derivative Works 4.0 License.
Recommended Citation
Olbricht, Gayla; Sardesai, Nagesh; Gelvin, Stanton B.; Craig, Bruce A.; and Doerge, R. W.
(2009).
"STATISTICAL METHODS FOR AFFYMETRIX TILING ARRAY DATA,"
Conference on Applied Statistics in Agriculture.
https://doi.org/10.4148/2475-7772.1080
STATISTICAL METHODS FOR AFFYMETRIX TILING ARRAY DATA
Tiling arrays are a microarray technology currently being used for a variety of genomic and epigenomic applications, such as the mapping of transcription, DNA methylation, and histone modifications. Tiling arrays provide high-density coverage of a genome, or a genomic region, through the systematic and sequential placement of probes without regard to genome annotation. In this paper we compare the Affymetrix tiling array to the Affymetrix GeneChip® 3’ expression array and propose methods that address statistical and bioinformatic issues that accompany gene expression data that are generated from Affymetrix tiling arrays. Real data from the model organism Arabidopsis thaliana motivate this work and application.
