Variations in genome-wide RNAi screens: lessons from influenza research.
Genome-wide RNA interference (RNAi) screening is an emerging and powerful technique for genetic screens, which can be divided into arrayed RNAi screen and pooled RNAi screen/selection based on different screening strategies. To date, several genome-wide RNAi screens have been successfully performed to identify host factors essential for influenza virus replication. However, the host factors identified by different research groups are not always consistent. Taking influenza virus screens as an example, we found that a number of screening parameters may directly or indirectly influence the primary hits identified by the screens. This review highlights the differences among the published genome-wide screening approaches and offers recommendations for performing a good pooled shRNA screen/selection.
National RNAi Core Facility Platform, Academia Sinica, Taipei, 11529 Taiwan ; Institute of Molecular Biology, Academia Sinica, Taipei, 11529 Taiwan.
Yu-Chi
YC
Chou
Institute of Molecular Biology, Academia Sinica, Taipei, 11529 Taiwan ; Research Center for Emerging Viruses, China Medical University Hospital, Room 602, 6 F, Cancer Center Building, No. 6, Hsueh-Shih Road, Taichung, 40402 Taiwan ; China Medical University, Room 602, 6 F, Cancer Center Building, No. 6, Hsueh-Shih Road, Taichung, 40402 Taiwan ; Center of Infectious Disease and Signaling Research, National Cheng Kung University, Tainan, 70101 Taiwan.
Michael Mc
MM
Lai
National RNAi Core Facility Platform, Academia Sinica, Taipei, 11529 Taiwan.
Yi-Chen
YC
Wu
National RNAi Core Facility Platform, Academia Sinica, Taipei, 11529 Taiwan.
Nai-Chi
NC
Hsu
National RNAi Core Facility Platform, Academia Sinica, Taipei, 11529 Taiwan ; Institute of Molecular Biology, Academia Sinica, Taipei, 11529 Taiwan.
King-Song
KS
Jeng
Research Center for Emerging Viruses, China Medical University Hospital, Room 602, 6 F, Cancer Center Building, No. 6, Hsueh-Shih Road, Taichung, 40402 Taiwan ; China Medical University, Room 602, 6 F, Cancer Center Building, No. 6, Hsueh-Shih Road, Taichung, 40402 Taiwan.
Wen-Chi
WC
Su
Arrayed siRNA screen; Genome-wide screen; Influenza virus; Lentivirus; Pooled shRNA screen; RNA interference (RNAi)