Table 1: Comparison of regions of interest identified by swatCGH following four methods of DNA segmentation. The values shown are derived from 3-probe window analysis of the GBM dataset, using adaptive thresholding to limit CNAs to 10% of the genome. For each segmentation method data is provided for regions of copy number gain, regions of copy number loss, and for the total CNA. Italic columns represent findings for CRIs using unfiltered data, while roman columns represent data for MRIs filtered for significance using amplitude-based prioritization ( 𝑃 < 0 . 1 ).

All regionsFiltered regions ( 𝑃 < 0 . 1 )
Number CRIsProportion CNANumber CRIsProportion CNA

BioHMM

Gain2537.34%691.33%
Loss2273.62%440.56%
Total48010.96%1131.89%
Gain : Loss2.032.40

GLAD

Gain6618.91%111.04%
Loss6512.17%70.18%
Total13131.08%181.22%
Gain : Loss1.555.67

DNAcopy

Gain999.81%130.81%
Loss11815.36%190.99%
Total21725.17%321.80%
Gain : Loss0.640.82

HomHMM

Gain2755.48%460.93%
Loss2163.39%240.29%
Total4918.87%701.23%
Gain : Loss1.623.20