title: Design and evaluation of genome-wide libraries for RNA interference screens.
abstract: RNA interference (RNAi) screens have enabled the systematic analysis of many biological processes in cultured cells and whole organisms. The success of such screens and the interpretation of the data depend on the stringent design of RNAi libraries. We describe and validate NEXT-RNAi, a software for the automated design and evaluation of RNAi sequences on a genome-wide scale. NEXT-RNAi is implemented as open-source software and is accessible at http://www.nextrnai.org/.
authors.affiliation: German Cancer Research Center (DKFZ), Division of Signaling and Functional Genomics and University of Heidelberg, Department of Cell and Molecular Biology, Faculty of Medicine Mannheim, Im Neuenheimer Feld 580, D-69120 Heidelberg, Germany.
authors.forename: Thomas
authors.initials: T
authors.lastname: Horn
authors.forename: Thomas
authors.initials: T
authors.lastname: Sandmann
authors.forename: Michael
authors.initials: M
authors.lastname: Boutros
mesh_terms: D000818:Animals; D000852:Anopheles / Q000235:genetics; D019295:Computational Biology / Q000379:methods*; D004331:Drosophila melanogaster / Q000201:enzymology / Q000235:genetics; D055785:Gene Knockdown Techniques; D016678:Genome / Q000235:genetics*; D015894:Genome, Human / Q000235:genetics; D015698:Genomic Library; D006801:Humans; D010749:Phosphoprotein Phosphatases / Q000378:metabolism; D011786:Quality Control; D034622:RNA Interference; D034741:RNA, Small Interfering / Q000378:metabolism; D015203:Reproducibility of Results; D012984:Software; D014231:Tribolium / Q000235:genetics
chemical_list: D034741:RNA, Small Interfering; D010749:Phosphoprotein Phosphatases