Spreadsheet: a01e8d3c-3e02-4288-b379-44f17a8094d4
Sheet: Sheet1

Supplementary Table 6. Amplicons identified in TP53 mutation positive HGSC samples, containing no genes | Unnamed: 1 | Unnamed: 2 | Unnamed: 3 | Unnamed: 4 | Unnamed: 5 | Unnamed: 6 | Unnamed: 7 | Unnamed: 8 | Unnamed: 9 | Unnamed: 10 | Unnamed: 11 | Unnamed: 12 | Unnamed: 13 | Unnamed: 14 | Unnamed: 15 | Unnamed: 16 | Unnamed: 17 | Unnamed: 18
CHR | Cytoband | [NAME] | [NAME] | Coordinates | Number of genes mapping to amplicon | Number of samples with amplification | Overlaps known CNV? | Overlaps global region of gain (TP53 mutation positive samples)? | % samples with focal gain of region (TP53 mutation positive samples) | Overlaps global region of loss (p53 immuno positive samples)? | % samples with focal gain of region (p53 immuno positive samples) | Overlaps global region of loss (p53 immuno negative samples)? | % samples with focal gain of region (p53 immuno negative samples) |  | Overlaps global region of gain identified by TCGA, 2011? | Overlaps focal region of gain identified by TCGA, 2011? | Overlaps global region of gain identified by [NAME], 2010? | Overlaps focal region of gain identified by [NAME], 2010?
1 | 1q25.3 | rs11582767 | rs12141165 | chr1:179393126-179573225 | 0 | 1 | CNV |  | 30 | yes | 35 |  | 15 |  |  |  |  | yes
2 | 2p25.3 | cnvi0009470 | rs7609512 | chr2:58447-241673 | 0 | 1 | CNV |  | 35 |  | 35 |  | 35 |  |  |  |  | yes
2 | 2p22.3 | rs773828 | [NAME] | chr2:33957050-35609489 | 0 | 1 | CNV |  | 25 |  | 25 |  | 25 |  |  |  |  | yes
2 | 2q12.3 | [NAME] | rs10496413 | chr2:106901861-107473982 | 0 | 1 | CNV |  | 15 |  | 25 |  | 5
2 | 2q14.1 | rs13401508 | rs2130980 | chr2:116458448-116966393 | 0 | 1 |  |  | 10 |  | 15 |  | 15
2 | 2q14.3 | rs28703141 | rs6741528 | chr2:126659862-127112701 | 0 | 1 | CNV |  | 15 |  | 15 |  | 15
2 | 2q32.1 | rs263767 | rs4300794 | chr2:185640560-186121369 | 0 | 1 | CNV |  | 20 |  | 15 |  | 25
3 | 3p11.1-3q11.2 | rs13059313 | rs9713029 | chr3:90277312-95041616 | 0 | 1 |  |  | 40 |  | 35 |  | 50 |  |  |  |  | yes
3 | 3q13.11-3q13.12 | rs920937 | rs1712541 | chr3:107770703-108116324 | 0 | 1 | CNV | yes | 15 | yes | 15 | yes | 15 |  | yes |  | yes | yes
4 | 4q28.3 | rs7690467 | rs6534907 | chr4:133545845-133962776 | 0 | 1 | CNV |  | 5 |  | 2 |  | 10
4 | 4q31.23 | [NAME] | rs6832401 | chr4:150059362-150867831 | 0 | 1 |  |  | 5 |  | 5 |  | 10
5 | 5p14.1 | rs6891780 | rs4133400 | chr5:28149964-28551085 | 0 | 1 | CNV |  | 30 |  | 25 |  | 25 |  |  |  |  | yes
7 | 7q11.1-7q11.21 | cnvi0021217 | cnvi0001081 | chr7:61074213-62238968 | 0 | 12 | CNV |  | 60 | yes | 60 | yes | 70
7 | 7q21.11 | rs2522370 | rs1396583 | chr7:83852556-85258090 | 0 | 1 | CNV |  | 15 | yes | 15 | yes | 15 |  |  |  |  | yes
8 | 8p23.2 | rs6983919 | rs10092548 | chr8:5152875-5663466 | 0 | 1 | CNV |  | 5 |  | 5 |  | 0
11 | 11p12 | rs12285478 | rs10501269 | chr11:41268936-41556543 | 0 | 1 | CNV |  | 4 |  | 5 |  | 10
11 | 11q22.1 | rs11212729 | rs12796171 | chr11:97162725-97961695 | 0 | 1 | CNV |  | 15 |  | 10 |  | 20
12 | 12q15 | rs4913442 | [NAME] | chr12:67061503-67233157 | 0 | 1 |  |  | 15 |  | 15 |  | 20 |  |  | yes
14 | 14q11.1 | [NAME] | cnvi0020268 | chr14:18210177-18426389 | 0 | 8 | CNV |  | 60 |  | 55 |  | 65
14 | 14q23.3 | rs8007846 | rs8021730 | chr14:65332716-66956534 | 0 | 1 | CNV |  | 5 |  | 5 |  | 5
15 | 15q26.3 | rs12915600 | rs8036586 | chr15:99855506-99969565 | 0 | 1 | CNV |  | 15 |  | 15 |  | 10
HGSC, high-grade serous carcinoma; CHR, chromosome; CNV copy number variation