Table 2:
Benchmarking analysis of PseudoFuN databases
| Gene | BlastDB | CUDAlign18 | CUDAlign54 | CUDAlign135 | CUDAlign198 | PMID |
|---|---|---|---|---|---|---|
| PTEN | Yes | No | No | No | No | 26442270 |
| TUSC | No | No | No | No | No | 26442270 |
| INTS6 | Yes | No | No | No | No | 26442270 |
| OCT4 | Yes | Yes | Yes | Yes | Yes | 26442270 |
| HMGA1 | Yes | Yes | Yes | Yes | Yes | 26442270 |
| CYP4Z1 | No | No | No | No | No | 26442270 |
| BRAF | Yes | No | No | No | No | 26442270 |
| KLK4 | No | No | No | No | No | 22726445 |
| ATP8A2 | No | Yes | Yes | No | No | 22726445 |
| CXADR | No | Yes | Yes | Yes | Yes | 22726445 |
| CALM2 | Yes | Yes | Yes | Yes | Yes | 22726445 |
| TOMM40 | Yes | Yes | Yes | Yes | Yes | 22726445 |
| NONO | Yes | Yes | Yes | Yes | Yes | 22726445 |
| PERP | No | Yes | Yes | Yes | Yes | 22726445 |
| DUSP8 | Yes | Yes | No | No | No | 22726445 |
| YES1 | Yes | Yes | No | No | No | 22726445 |
| GJA1 | Yes | No | No | No | No | 22726445 |
| AURKA | Yes | Yes | Yes | Yes | Yes | 22726445 |
| RHOB | No | No | No | No | No | 22726445 |
| HMGB1 | Yes | Yes | Yes | Yes | Yes | 22726445 |
| EIF4A1 | Yes | Yes | No | No | No | 22726445 |
| EIF4H | Yes | Yes | Yes | Yes | Yes | 22726445 |
| SNRP6 | Yes | Yes | Yes | Yes | Yes | 22726445 |
| RAB1 | Yes | No | No | No | No | 22726445 |
| VDAC1 | Yes | Yes | No | No | No | 22726445 |
| RCC2 | Yes | No | No | No | No | 22726445 |
| PTMA | Yes | Yes | Yes | Yes | Yes | 22726445 |
| NDUFA9 | Yes | Yes | Yes | Yes | Yes | 22726445 |
| CES7 | Yes | No | No | No | No | 22726445 |
| EPCAM | Yes | Yes | Yes | Yes | Yes | 22726445 |
| FTH1 | Yes | Yes | Yes | Yes | Yes | 29240947 |
| Hits | 24/31 | 20/31 | 16/31 | 15/31 | 15/31 | |
| Total hits | 27/31 |
Genes indicate the gene with which the pseudogenes are associated in the literature. BLAST and CUDAlign columns indicate the specific databases. PMID indicates the literature from which the PGG relationship was derived. Benchmark totals are included at the bottom of the table.