Table 3.
Reliability examination of the randomly selected 30 feeding Ahringer C. elegans RNAi bacterial strains with different scores
| Information provided by the manufacturer | Information based on direct sequencing analysis | ||||||||
|---|---|---|---|---|---|---|---|---|---|
| Seq. No. | Reliability score | GenePairs name | GeneService location | Predictable by MFEprimer | GenePairs name | GeneService location | Predictable by MFEprimer | Reliability examination manually | Comment |
| 1 | 100 | F18H3.3 | X-6I10 | √ | F18H3.3 | X-6I10 | √ | √ | |
| 2 | 100 | F22E12.4 | V-7A24 | √ | F22E12.4 | V-7A24 | √ | √ | |
| 3 | 100 | T07D1.4 | X-1J16 | √ | T07D1.4 | X-1J16 | √ | √ | |
| 4 | 100 | K09G1.4 | V-6P21 | √ | K09G1.4 | V-6P21 | √ | √ | |
| 5 | 100 | T26G10.1 | III-5C07 | √ | T26G10.1 | III-5C07 | √ | √ | |
| 6 | 100 | W01C9.5 | II-6A04 | √ | W01C9.5 | II-6A04 | √ | √ | |
| 7 | 49 | F36H12.3 | IV-2B04 | √ | F36H12.17 | IV-2D04 | × | √ | Remapped. Probably sample loading error: position of the strain was shifted vertically for two rows in same column of the same plate. |
| 8 | 48 | C17C3.13 | II-4D02 | √ | C17C3.13 | II-4D02 | √ | √ | |
| 9 | 48 | M142.1 | III-5F06 | √ | F54F12.2 | III-6D13 | √ | √ | Remapped. Nonspecific amplicon and may be prevented by MFEprimer evaluation on the primer set at first. |
| 10 | 46 | T08D2.2 | V-13E02 | √ | W07B8.1 | NA (not in the library) | √ | √ | Remapped. Nonspecific amplicon and may be prevented by MFEprimer evaluation on the primer set at first. |
| 11 | 44 | T17A3.3 | III-1E13 | √ | NA | NA | × | × | Empty vector construction based on direct sequencing |
| 12 | 42 | F58B4.1 | V-7B19 | √ | F58B4.1 | V-7B19 | √ | √ | |
| 13 | 36 | F48G7.5 | V-1G12 | √ | F48G7.5 | V-1G12 | √ | √ | |
| 14 | 32 | F32B5.4 | I-1I14 | √ | C45E1.1 | I-1M14 | × | √ | Remapped. Probably sample loading error: position of the strain was shifted vertically for four rows in same column of the same plate. |
| 15 | 30 | K11H12.1 | IV-1A12 | √ | K11H12.1 | IV-1A12 | √ | √ | |
| 16 | 28 | C03H5.5 | II-1O03 | √ | Y48G8AL.11 | NA (not in the library) | √ | √ | Remapped. Nonspecific amplicon and may be prevented by MFEprimer evaluation on the primer set at first. |
| 17 | 27 | C32E8.3 | I-1H21 | √ | C32E8.3 | I-1H21 | √ | √ | |
| 18 | 26 | F10G8.2 | I-5C13 | √ | F10G8.2 | I-5C13 | √ | √ | |
| 19 | 24 | C14B1.10 | III-1J10 | √ | NA | NA | √ | × | Nonspecific amplicon (Intergenic region [438973..440037] in chromosome I) and may be prevented by MFEprimer evaluation on the primer set at first. |
| 20 | 23 | F59H6.8 | II-2E10 | √ | F59H6.8 | II-2E10 | √ | √ | |
| 21 | 22 | R09A1.2 | V-1F13 | √ | NA | NA | √ | × | Nonspecific amplicon (Intergenic region [3064499..3065944] in chromosome V) and may be prevented by MFEprimer evaluation on the primer set at first. |
| 22 | 22 | B0554.1 | V-1K09 | √ | Y39D8A.1 | V-1K07 | × | √ | Remapped. Probably sample loading error by the manufacture: position of the strain was shifted horizontally for two columns in same row of the same plate. |
| 23 | 20 | C45G7.5 | IV-1N13 | √ | C45G7.5 | IV-1N13 | √ | √ | |
| 24 | 14 | W02G9.1 | V-2M18 | √ | W02G9.1 | V-2M18 | √ | √ | |
| 25 | 4 | C49A1.1 | I-7I17 | √ | Y48G8AL.13 | NA (not in the library) | √ | √ | Remapped. Nonspecific amplicon and may be prevented by MFEprimer evaluation on the primer set at first. |
| 26 | 0 | Y110A2A_4093.a | II-9H01 | × | K02F6.9 | NA (not in the library) | √ | √ | Retired gene name and remapped to the new gene. |
| 27 | 0 | C38H2.2 | III-5F21 | × | NA | NA | × | × | Nonspecific amplicon (Located in chromosome X according to the BLAST similarity search) and may be prevented by MFEprimer evaluation on the primer set at first. |
| 28 | 0 | Y119D3_462.c | III-7A23 | × | Y119D3A.2 | NA (not in the library) | √ | √ | Retired gene name and remapped to the new gene. |
| 29 | 0 | Y55B1B_119.g | III-7G04 | × | Multiple targets predicted | NA | × | √ | Retired gene name and remapped to multiple new genes. |
| 30 | 0 | Y67D8A_349.a | IV-8B22 | × | NA | NA | × | × | Retired |
Note: NA represents for "not available".