Copy Number
The putative cancer-associated GESPs driven by SCNAs in each cancer type were identified by four criteria: 1) located in a peak region of a significantly recurrent focal SNCA locus estimated by the genomic identification of significant targets in cancer (GISTIC2) algorithm, (q≤0.25); 2) altered with high frequency and large amplitude (G-score ≥0.1); 3) mRNA reliably detected in at least 10% of tumor specimens in the given cancer type (90th percentile of FPKM value ≥1); and 4) mRNA significantly and positively correlated with copy numbers (Pearson P-value less than 0.001).
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| Overall_Gscore | No. of Cancer Types | ||||||
| HGNC Name | Ensembl Gene ID | HGNC Symbol | Genomic Location | Amplification | Deletion | Amplification | Deletion |
| adenylate cyclase 3 | ENSG00000138031 | ADCY3 | chr2:24819169-24919839:- | 0.17 | 0 | 1 | 0 |
| all-trans retinoic acid induced differentiation factor | ENSG00000138085 | ATRAID | chr2:27212027-27217178:+ | 0.17 | 0 | 1 | 0 |
| solute carrier family 5 member 6 | ENSG00000138074 | SLC5A6 | chr2:27199587-27212958:- | 0.17 | 0 | 1 | 0 |
| fibronectin type III domain containing 4 | ENSG00000115226 | FNDC4 | chr2:27491883-27495245:- | 0.17 | 0 | 1 | 0 |
| dipeptidyl peptidase 7 | ENSG00000176978 | DPP7 | chr9:137110542-137115177:- | 0.17 | 0.52 | 1 | 3 |
| multiple EGF like domains 8 | ENSG00000105429 | MEGF8 | chr19:42325609-42378769:+ | 0.17 | 0.44 | 1 | 2 |
| transmembrane protein 145 | ENSG00000167619 | TMEM145 | chr19:42313325-42325062:+ | 0.17 | 0 | 1 | 0 |
| protein tyrosine phosphatase receptor type H | ENSG00000080031 | PTPRH | chr19:55181248-55209506:- | 0.17 | 0 | 1 | 0 |
| myotubularin 1 | ENSG00000171100 | MTM1 | chrX:150568619-150673322:+ | 0.17 | 0 | 1 | 0 |
| leucine rich repeat containing 26 | ENSG00000184709 | LRRC26 | chr9:137168758-137170051:- | 0.17 | 0.21 | 1 | 1 |
| claudin 1 | ENSG00000163347 | CLDN1 | chr3:190305701-190322475:- | 0.17 | 0 | 1 | 0 |
| claudin 16 | ENSG00000113946 | CLDN16 | chr3:190322541-190412143:+ | 0.17 | 0 | 1 | 0 |
| oxoeicosanoid receptor 1 | ENSG00000162881 | OXER1 | chr2:42762481-42764261:- | 0.17 | 0 | 1 | 0 |
| heat shock protein 90 alpha family class A member 1 | ENSG00000080824 | HSP90AA1 | chr14:102080738-102139699:- | 0.17 | 0.31 | 1 | 1 |
| extracellular leucine rich repeat and fibronectin type III domain containing 1 | ENSG00000225968 | ELFN1 | chr7:1688119-1747954:+ | 0.17 | 0 | 1 | 0 |
| cingulin | ENSG00000143375 | CGN | chr1:151510510-151538692:+ | 0.17 | 0 | 1 | 0 |
| lin-7 homolog C, crumbs cell polarity complex component | ENSG00000148943 | LIN7C | chr11:27494576-27506773:- | 0.16 | 0.12 | 1 | 1 |
| fibronectin leucine rich transmembrane protein 3 | ENSG00000125848 | FLRT3 | chr20:14322988-14337616:- | 0.16 | 0.98 | 1 | 3 |
| cadherin 1 | ENSG00000039068 | CDH1 | chr16:68737225-68835548:+ | 0.16 | 0.35 | 1 | 1 |
| interleukin 11 receptor subunit alpha | ENSG00000137070 | IL11RA | chr9:34650702-34661892:+ | 0.16 | 0 | 1 | 0 |
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