Segmentation of Array CGH Data with Application to Allele Specific Copy Number, Clonality, and Copy Number Variation
Cancer progression often involves alterations in DNA sequence copy number. Multiple microarray platforms now facilitate high-resolution copy number assessment of entire genomes in single experiments. This technology is generally referred to as array comparative genomic hybridization (array CGH). I will discuss our technique for identifying regions of abnormal copy number in array CGH data, which is called circular binary segmentation (CBS). The first published version of CBS was criticized for being slow. I will present our methods for greatly speeding up the procedure. I will also show our approaches to recent copy number applications including allele-specific copy number, clonality, and copy number variation.
This is joint work with E.S. Venkatraman.