title: Quantitative analysis of chromosome localization in the nucleus.
abstract: The spatial organization of the genome within the interphase nucleus is important for mediating genome functions. The radial organization of chromosome territories has been studied traditionally using two-dimensional fluorescence in situ hybridization (FISH) using labeled whole chromosome probes. Information from 2D-FISH images is analyzed quantitatively and is depicted in the form of the spatial distribution of chromosomes territories. However, to the best of our knowledge no open-access tools are available to delineate the position of chromosome territories from 2D-FISH images. In this chapter we present a methodology termed Image Analysis of Chromosomes for computing their localization (IMACULAT). IMACULAT is an open-access, automated tool that partitions the cell nucleus into shells of equal area or volume and computes the spatial distribution of chromosome territories.
authors.affiliation: Department of Biological Sciences, Tata Institute of Fundamental Research, Mumbai, Maharashtra, India, sanchak@gmail.com.
authors.forename: Sandeep
authors.initials: S
authors.lastname: Chakraborty
authors.forename: Ishita
authors.initials: I
authors.lastname: Mehta
authors.forename: Mugdha
authors.initials: M
authors.lastname: Kulashreshtha
authors.forename: B J
authors.initials: BJ
authors.lastname: Rao
mesh_terms: D002875:Chromosomes / Q000378:metabolism*; D005347:Fibroblasts / Q000166:cytology; D006801:Humans; D007091:Image Processing, Computer-Assisted; D017404:In Situ Hybridization, Fluorescence / Q000379:methods*