Skip to main content

Table 3 Reliability examination of the randomly selected 30 feeding Ahringer C. elegans RNAi bacterial strains with different scores

From: Reliability analysis of the Ahringer Caenorhabditis elegans RNAi feeding library: a guide for genome-wide screens

   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
  1. Note: NA represents for "not available".