Summary of genes corresponding to the hairpins identified in the ES cell screen
| Number | shRNA 19mer identified | Matching gene | Full gene name | Hairpin identity | Number of hairpins out of 300 | Percentage of hairpins | Described before? | Reference |
| 1 | TAGCGATGTGGTACACAGC | Capn10 | Calpain 10 | 19/19 (100%) | 151 | 50 | No | |
| 2 | TTTGCTTATAAGGTCACTC | Fbxl12 | F-box and leucine-rich repeat protein 12 | 19/19 (100%) | 24 | 8.0 | No | |
| 3 | TTGAGTGGCAATGTAACTC | Ptpn11 (Shp2) | Protein tyrosine phosphatase, non-receptor type 11 | 19/19 (100%) | 19 | 6.3 | Yes | Burdon et al., 1999 |
| 4 | TTGCTATCCATCTCGTTAC | Dusp27 | Dual specificity phosphatase 27 | 19/19 (100%) | 16 | 5.3 | No | |
| 5 | TATCTGACACAACAATTGC | MP1 | Mus musculus similar to mitogen-activated protein kinase kinase 1–interacting protein 1 (MEK binding partner 1) | 19/19 (100%) | 8 | 2.6 | No | |
| 6 | TTGACCAAGATGTTCCGAG | Ephb4 | Eph receptor B4 | 19/19 (100%) | 3 | 1.0 | Yes | Wang et al., 2006 |
| 7 | TTGAATAAACTTGGTAAAC | G0VN5 | Mus musculus similar to putative pheromone receptor (Go-VN5) | 19/19 (100%) | 3 | 1.0 | No | |
| 8 | CCCATTGAACTGCATACTA | Car3 | Carbonic anhydrase 3 | 19/19 (100%) | 2 | 0.7 | No | |
| 9 | TACTCTCTATAAGCCAGGC | Abca12 | ATP-binding cassette, sub-family A (ABC1), member 12, transcript variant 3 | 19/19 (100%) | 2 | 0.7 | No | |
| 10 | CATTTATGACTGAACTCTA | Ccdc122 | Coiled-coil domain containing 122 | 19/19 (100%) | 1 | 0.3 | No | |
| 11 | TACTAAGTAGGGCAGCTTC | Mllt4 | Myeloid/lymphoid or mixed-lineage leukemia | 19/19 (100%) | 1 | 0.3 | Yes | Ikeda et al., 1999 |
| 12 | GGATTATATCCATATTCAA | Sism | Similar to suppressor of initiator codon mutations | 19/19 (100%) | 1 | 0.3 | No |
| Number | shRNA 19mer identified | Matching gene | Full gene name | Hairpin identity | Number of hairpins out of 300 | Percentage of hairpins | Described before? | Reference |
| 1 | TAGCGATGTGGTACACAGC | Capn10 | Calpain 10 | 19/19 (100%) | 151 | 50 | No | |
| 2 | TTTGCTTATAAGGTCACTC | Fbxl12 | F-box and leucine-rich repeat protein 12 | 19/19 (100%) | 24 | 8.0 | No | |
| 3 | TTGAGTGGCAATGTAACTC | Ptpn11 (Shp2) | Protein tyrosine phosphatase, non-receptor type 11 | 19/19 (100%) | 19 | 6.3 | Yes | Burdon et al., 1999 |
| 4 | TTGCTATCCATCTCGTTAC | Dusp27 | Dual specificity phosphatase 27 | 19/19 (100%) | 16 | 5.3 | No | |
| 5 | TATCTGACACAACAATTGC | MP1 | Mus musculus similar to mitogen-activated protein kinase kinase 1–interacting protein 1 (MEK binding partner 1) | 19/19 (100%) | 8 | 2.6 | No | |
| 6 | TTGACCAAGATGTTCCGAG | Ephb4 | Eph receptor B4 | 19/19 (100%) | 3 | 1.0 | Yes | Wang et al., 2006 |
| 7 | TTGAATAAACTTGGTAAAC | G0VN5 | Mus musculus similar to putative pheromone receptor (Go-VN5) | 19/19 (100%) | 3 | 1.0 | No | |
| 8 | CCCATTGAACTGCATACTA | Car3 | Carbonic anhydrase 3 | 19/19 (100%) | 2 | 0.7 | No | |
| 9 | TACTCTCTATAAGCCAGGC | Abca12 | ATP-binding cassette, sub-family A (ABC1), member 12, transcript variant 3 | 19/19 (100%) | 2 | 0.7 | No | |
| 10 | CATTTATGACTGAACTCTA | Ccdc122 | Coiled-coil domain containing 122 | 19/19 (100%) | 1 | 0.3 | No | |
| 11 | TACTAAGTAGGGCAGCTTC | Mllt4 | Myeloid/lymphoid or mixed-lineage leukemia | 19/19 (100%) | 1 | 0.3 | Yes | Ikeda et al., 1999 |
| 12 | GGATTATATCCATATTCAA | Sism | Similar to suppressor of initiator codon mutations | 19/19 (100%) | 1 | 0.3 | No |
The total number of hairpins was 234 (78%), with other hairpins numbering 66 (22%), for a grand total of 300 (100%).