Orlando Data Science LLC 1 article published in JoVE Biology Alignment of Synchronized Time-Series Data Using the Characterizing Loss of Cell Cycle Synchrony Model for Cross-Experiment Comparisons Sophia A. Campione1, Christina M. Kelliher2, David A. Orlando3, Trung Q. Tran4, Steven B. Haase1 1Department of Biology, Duke University, 2Department of Biology, University of Massachusetts, 3Orlando Data Science LLC, 4Department of Computer Science, Duke University One challenge of analyzing synchronized time-series experiments is that the experiments often differ in the length of recovery from synchrony and the cell-cycle period. Thus, the measurements from different experiments cannot be analyzed in aggregate or readily compared. Here, we describe a method for aligning experiments to allow for phase-specific comparisons.