Details zur Publikation

Kategorie Textpublikation
Referenztyp Zeitschriften
DOI 10.1093/bioinformatics/bts142
Titel (primär) Detection of differentially expressed segments in tiling array data
Autor Otto, C.; Reiche, K.; Hackermüller, J.
Journal / Serie Bioinformatics
Erscheinungsjahr 2012
Department PROTEOM
Band/Volume 28
Heft 11
Seite von 1471
Seite bis 1479
Sprache englisch

Motivation: Tiling arrays have been a mainstay of unbiased genome-wide transcriptomics over the last decade. Currently available approaches to identify expressed or differentially expressed segments in tiling array data are limited in the recovery of the underlying gene structures and require several parameters that are intensity-related or partly dataset-specific.

Results: We have developed TileShuffle, a statistical approach that identifies transcribed and differentially expressed segments as significant differences from the background distribution while considering sequence-specific affinity biases and cross-hybridization. It avoids dataset-specific parameters in order to provide better comparability of different tiling array datasets, based on different technologies or array designs. TileShuffle detects highly and differentially expressed segments in biological data with significantly lower false discovery rates under equal sensitivities than commonly used methods. Also, it is clearly superior in the recovery of exon–intron structures. It further provides window z-scores as a normalized and robust measure for visual inspection.

dauerhafte UFZ-Verlinkung
Otto, C., Reiche, K., Hackermüller, J. (2012):
Detection of differentially expressed segments in tiling array data
Bioinformatics 28 (11), 1471 - 1479