title: HIPMap: A High-Throughput Imaging Method for Mapping Spatial Gene Positions.
abstract: The three-dimensional organization of genes inside the cell nucleus affects their functions including DNA transcription, replication, and repair. A major goal in the field of nuclear architecture is to determine what cellular factors establish and maintain the position of individual genes. Here, we describe HIPMap, a high-throughput imaging and analysis pipeline for the mapping of endogenous gene loci within the 3D space of the nucleus. HIPMap can be used for a variety of applications including screening, mapping translocations, validating chromosome conformation capture data, probing DNA-protein interactions, and interrogation of the relationship of gene expression with localization.
authors.affiliation: National Cancer Institute, National Institutes of Health, Bethesda, Maryland 20892.
authors.forename: Sigal
authors.initials: S
authors.lastname: Shachar
authors.affiliation: National Cancer Institute, National Institutes of Health, Bethesda, Maryland 20892.
authors.forename: Gianluca
authors.initials: G
authors.lastname: Pegoraro
authors.affiliation: National Cancer Institute, National Institutes of Health, Bethesda, Maryland 20892.
authors.forename: Tom
authors.initials: T
authors.lastname: Misteli
mesh_terms: D000818:Animals; D002467:Cell Nucleus; D002874:Chromosome Mapping; D002875:Chromosomes; D004247:DNA; D005786:Gene Expression Regulation; D006801:Humans; D021621:Imaging, Three-Dimensional; D017404:In Situ Hybridization, Fluorescence
chemical_list: D004247:DNA