Merging microarray cell synchronization experiments through curve alignment

• DOI: 10.1093/bioinformatics/btl320
• Publication Date: 2007-01-19T18:51:12Z
• Authors: Filip Hermans; Elena Tsiporkova
• Keywords: Cell synchronization; Benchmark (surveying); Expression (computer science)

Abstract Motivation: The validity of periodic cell cycle regulation studies in plants is seriously compromised by the relatively poor quality synchrony that achieved for plant suspension cultures comparison to yeast and mammals. present state-of-the-art synchronization techniques cannot offer a complete coverage moreover considerable loss may occur toward end sampling. One possible solution consider combining multiple datasets, produced different thus covering phases cycle, order arrive at better coverage. Results: We propose method enables pasting expression profiles from experiments results an curve spans more than one cycle. optimal overlap determined via dynamic time warping alignment. Consequently, series are merged together aggregating corresponding values lying within area. demonstrate analysis produces reliable p-values periodicity. Subsequent Gene Ontology confirms merging robust strategy selection potentially genes. Additional validation proposed algorithm on data also presented. Availability: Results, benchmark sets scripts freely available our website: Contact: [e-mail], [e-mail]