title: Radial arrangement of chromosome territories in human cell nuclei: a computer model approach based on gene density indicates a probabilistic global positioning code.
abstract: Numerous investigations in the last years focused on chromosome arrangements in interphase nuclei. Recent experiments concerning the radial positioning of chromosomes in the nuclear volume of human and primate lymphocyte cells suggest a relationship between the gene density of a chromosome territory (CT) and its distance to the nuclear center. To relate chromosome positioning and gene density in a quantitative way, computer simulations of whole human cell nuclear genomes of normal karyotype were performed on the basis of the spherical 1 Mbp chromatin domain model and the latest data about sequence length and gene density of chromosomes. Three different basic assumptions about the initial distribution of chromosomes were used: a statistical, a deterministic, and a probabilistic initial distribution. After a simulated decondensation in early G1, a comparison of the radial distributions of simulated and experimentally obtained data for CTs Nos. 12, 18, 19, and 20 was made. It was shown that the experimentally observed distributions can be fitted better assuming an initial probabilistic distribution. This supports the concept of a probabilistic global gene positioning code depending on CT sequence length and gene density.
authors.affiliation: Kirchhoff Institute for Physics, and Interdisciplinary Center for Scientific Computing (IWR), University of Heidelberg, Heidelberg, Germany. gkreth@kip.uni-heidelberg.de
authors.forename: G
authors.initials: G
authors.lastname: Kreth
authors.forename: J
authors.initials: J
authors.lastname: Finsterle
authors.forename: J
authors.initials: J
authors.lastname: von Hase
authors.forename: M
authors.initials: M
authors.lastname: Cremer
authors.forename: C
authors.initials: C
authors.lastname: Cremer
mesh_terms: D001703:Biophysics / Q000379:methods; D002467:Cell Nucleus / Q000378:metabolism* / Q000648:ultrastructure; D002478:Cells, Cultured; D002843:Chromatin / Q000737:chemistry / Q000378:metabolism; D002875:Chromosomes / Q000648:ultrastructure*; D003198:Computer Simulation; D004247:DNA / Q000378:metabolism; D016193:G1 Phase; D006801:Humans; D021621:Imaging, Three-Dimensional; D017404:In Situ Hybridization, Fluorescence; D007621:Karyotyping; D008958:Models, Molecular; D015233:Models, Statistical; D008962:Models, Theoretical; D017434:Protein Structure, Tertiary; D012984:Software; D013997:Time Factors
chemical_list: D002843:Chromatin; D004247:DNA