GC Wave Correction for Array-Based Comparative Genomic Hybridization
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United States of America Patent
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Issued Date -
Feb 9, 2012
app pub date -
Apr 29, 2011
filing date -
Apr 29, 2010
priority date (Note) -
Abandoned
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Abstract
The present invention provides, among other things, new methods for optimizing comparative genomic hybridization (CGH) data analysis. In particular, the methods of the invention provide increased sensitivity and specificity due to the implemented individual chromosome-based GC-wave correction. In certain embodiments, the log ratios of probes derived from each chromosome are corrected based on the chromosome's GC content slope, and certain selected chromosomes undergo chromosomal median adjustment. As a result, the log ratios of the probes on the array are normalized to be closer to zero (0) for diploid regions and thus, the GC waves are substantially reduced, resulting in a reduced false positive rate. Systems, computer readable media, and kits for use in the optimized CGH methods also are provided.
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