Skip to main content

Table 2 Characteristics of deletion clusters and conflicts. For each considered data set as described in the text with the parameters given in Table 1, the number of maximal deletion clusters (found by GASV) and the number and percentage of clusters involved in conflicts is given. Chromosomes 1, 6, 7, 10, 18 and 19 are not included this table. (In the complete normal data set, 44 of 3,928 deletions, i.e., 1.1% were conflicting.) "Tumor-spec." denotes the set of putatively tumor-specific deletions extracted from a pooled analysis. A precise description of the notion of conflicts and the method used to detect them is given in Sections 'Haploid Conflicts' and 'Diploid Conflicts'.

From: Consistency-based detection of potential tumor-specific deletions in matched normal/tumor genomes

Data Set Deletions Confl. Deletions Del. ≥ 20 Confl. Del. ≥ 20
Normal 2,765 29 (1.0%) 1,338 23 (1.7%)
Tumor 46,146 14,234 (30.8%) 15,644 5,990 (38.3%)
Tumor-Subset 680 217 (31.9%) 628 206 (32.8%)
Pooled Tumor-spec. 44,276 13,644 (30.8%) 14,377 5,541 (38.5%)
Pooled-Subset Tumor-spec. 137 97 (70.8%) 125 92 (73.6%)