RNAi: Design and Application

Contents Preface ............................................................................................ Contributors ...................................................................................... Part I. Designing Optimal RNAi Tools 1 Principles of Dicer Substrate (D-siRNA) Design and Function Mohammed Amarzguioui and John J. Rossi ................................. 2 Expression, Purification, and Analysis of Recombinant Drosophila Dicer-1 and Dicer-2 Enzymes Xuecheng Ye and Qinghua Liu ................................................. 3 In vitro RNA Cleavage Assay for Argonaute-Family Proteins Keita Miyoshi, Hiroshi Uejima, Tomoko Nagami, Haruhiko Siomi, and Mikiko C. Siomi ................................................................. 4 Identifying siRNA-Induced Off-Targets by Microarray Analysis Emily Anderson, Queta Boese, Anastasia Khvorova, and Jon Karpilow ................................................................................. Part II. Application of RNAi in diverse organisms 5 Hydrodynamic Delivery of siRNA in a Mouse Model of Sepsis Doreen E. Wesche-Soldato, Joanne Lomas-Neira, Mario Perl, Chun-Shiang Chung, and Alfred Ayala ................................................ 6 Nasal Delivery of siRNA Vira Bitko and Sailen Barik ........................................................ 7 RNA Interference as a Genetic Tool in Trypanosomes Vivian Bellofatto and Jennifer B. Palenchar ................................ 8 Lentivirus-Mediated RNA Interference in Mammalian Neurons Scott Q. Harpera and Pedro Gonzalez-Alegre .............................. 9 Silencing Genes by RNA Interference in the Protozoan Parasite Entamoeba histolytica Carlos F. Solis and Nancy Guillén.............................................. 10 Use of RNAi in C. elegans Tsuyoshi Ohkumo, Chikahide Masutani, Toshihiko Eki, and Fumio Hanaoka ................................................................................. 11 Application of siRNA against SARS in the Rhesus Macaque Model Qingquan Tang, Baojian Li, Martin Woodle, Patrick Y. Lu .............. 12 siRNA and shRNA as Anticancer Agents in a Cervical Cancer Model Wenyi Gu, Lisa Putral, and Nigel McMillan .................................. 13 Identification and Expression Analysis of Small RNAs During Development Toshiaki Watanabe, Hiroshi Imai and Naojiro Minami .................. 14 Screening and Identification of Virus-Encoded RNA Silencing Suppressors Sumona Karjee, Mohammad Nurul