CGH ARRAY QUALITY ASSESSEMENT

摘要

Methods, systems and computer readable media for characterizing quality of CGH arrays, including generating at least one metric for a CGH array that characterizes a property of the CGH array; repeating generation of the at least one metric for at least one additional CGH array; and comparing each metric across all CGH array metric values generated to identify a quality of any one of the CGH arrays characterized, relative to the CGH arrays characterized for that metric. Methods, systems and computer readable media for determining the quality of a CGH array, including calculating a spread of the derivative of log ratio value differences between consecutive probes representing consecutive positions along a chromosome, wherein ratio values are calculated from probe signals from a CGH array, as read by a reader on first and second channels thereof, or from probes signals from two CGH arrays, as read by a single channel reader. Methods, systems and computer readable media for qualifying a CGH array, including quantifying an interarray reproducibility metric characterizing selected sets of probe replicates. Methods, systems and computer readable media for qualifying a CGH array, including generating a Receiver Operating Characteristic (ROC) curve and analyzing false positive and true positive signals from a normal male sample and a normal female sample, as read by a reader on first and second channels thereof, or from one of a normal male sample and a normal female sample on the CGH array and the other of the normal male sample and normal female sample on a second CGH array, as read by a single-channel reader. Methods, systems and computer readable media for determining the quality of a CGH array, including segmenting, by copy number, log ratio signals from probes on the CGH array representing a genome; plotting a probability distribution of the segmented log ratio values; and quantifying separation between copy number peaks resulting from the plotting of the probability distribution.