title: A robust co-localisation measurement utilising z-stack image intensity similarities for biological studies.
abstract: BACKGROUND
  Co-localisation is a widely used measurement in immunohistochemical analysis to determine if fluorescently labelled biological entities, such as cells, proteins or molecules share a same location. However the measurement of co-localisation is challenging due to the complex nature of such fluorescent images, especially when multiple focal planes are captured. The current state-of-art co-localisation measurements of 3-dimensional (3D) image stacks are biased by noise and cross-overs from non-consecutive planes.
  
  
  METHODS
  In this study, we have developed Co-localisation Intensity Coefficients (CICs) and Co-localisation Binary Coefficients (CBCs), which uses rich z-stack data from neighbouring focal planes to identify similarities between image intensities of two and potentially more fluorescently-labelled biological entities. This was developed using z-stack images from murine organotypic slice cultures from central nervous system tissue, and two sets of pseudo-data. A large amount of non-specific cross-over situations are excluded using this method. This proposed method is also proven to be robust in recognising co-localisations even when images are polluted with a range of noises.
  
  
  RESULTS
  The proposed CBCs and CICs produce robust co-localisation measurements which are easy to interpret, resilient to noise and capable of removing a large amount of false positivity, such as non-specific cross-overs. Performance of this method of measurement is significantly more accurate than existing measurements, as determined statistically using pseudo datasets of known values. This method provides an important and reliable tool for fluorescent 3D neurobiological studies, and will benefit other biological studies which measure fluorescence co-localisation in 3D.
authors.affiliation: Centre for Cancer Research and Cell Biology, Queen's University Belfast, Belfast, United Kingdom. y.wang@qub.ac.uk
authors.forename: Yinhai
authors.initials: Y
authors.lastname: Wang
authors.forename: Craig
authors.initials: C
authors.lastname: Ledgerwood
authors.forename: Claire
authors.initials: C
authors.lastname: Grills
authors.forename: Denise C
authors.initials: DC
authors.lastname: Fitzgerald
authors.forename: Peter W
authors.initials: PW
authors.lastname: Hamilton
mesh_terms: D000465:Algorithms; D000818:Animals; D001921:Brain / Q000378:metabolism; D007091:Image Processing, Computer-Assisted / Q000379:methods*; D007150:Immunohistochemistry / Q000379:methods*; D051379:Mice; D009186:Myelin Sheath / Q000378:metabolism; D021381:Protein Transport