title: Exploring genome-wide datasets of MHC class II antigen presentation.
abstract: MHC class II molecules (MHCII) are critical for presenting antigens to CD4(+) T-cells. They control ignition of CD4(+) T cells and are as such involved in most auto-immune diseases. To define proteins and pathways controlling MHCII antigen presentation and expression, we performed a genome-wide flow cytometry based RNAi screen. Hits were subsequently classified by two screens that monitored the intracellular distribution and transcription of MHCII. This multi-dimensional approach allowed subclassification of hits into functional groups as a first step to defining new pathways controlling MHCII antigen presentation. The datasets from this screen are used as a template for several follow-up studies. This overview focuses on how data from genome-wide screens can be used for target-lead finding, data mining, systems biology and systematic cell biology.
authors.affiliation: Division of Cell Biology, the Netherlands Cancer Institute, Amsterdam, The Netherlands.
authors.forename: Ruud H
authors.initials: RH
authors.lastname: Wijdeven
authors.forename: Jeroen M
authors.initials: JM
authors.lastname: Bakker
authors.forename: Petra
authors.initials: P
authors.lastname: Paul
authors.forename: Jacques
authors.initials: J
authors.lastname: Neefjes
mesh_terms: D017951:Antigen Presentation / Q000235:genetics; D000938:Antigen-Presenting Cells / Q000276:immunology; D015496:CD4-Positive T-Lymphocytes / Q000276:immunology; D003713:Dendritic Cells / Q000276:immunology; D055106:Genome-Wide Association Study; D000949:Histocompatibility Antigens Class II / Q000235:genetics* / Q000276:immunology; D006801:Humans; D008213:Lymphocyte Activation; D034622:RNA Interference; D034741:RNA, Small Interfering
chemical_list: D000949:Histocompatibility Antigens Class II; D034741:RNA, Small Interfering