title: Non-rigid registration of 3D multi-channel microscopy images of cell nuclei.
abstract: We present an intensity-based non-rigid registration approach for normalizing 3D multi-channel microscopy images of cell nuclei. A main problem with cell nuclei images is that the intensity structure of different nuclei differs very much, thus an intensity-based registration scheme cannot be used directly. Instead, we first perform a segmentation of the images, smooth them by a Gaussian filter, and then apply an intensity-based algorithm. To improve the convergence rate of the algorithm, we propose an adaptive step length optimization scheme and also employ a multi-resolution scheme. Our approach has been successfully applied using 2D cell-like synthetic images, 3D phantom images as well as 3D multichannel microscopy images representing different chromosome territories and gene regions (BACs). We also describe an extension of our approach which is applied for the registration of 3D+t (4D) image series of moving cell nuclei.
authors.affiliation: Biomedical Computer Vision Group, Dept. Theoretical Bioinformatics, DKFZ Heidelberg, Germany. s.yang@dkfz.de
authors.forename: Siwei
authors.initials: S
authors.lastname: Yang
authors.forename: Daniela
authors.initials: D
authors.lastname: Köhler
authors.forename: Kathrin
authors.initials: K
authors.lastname: Teller
authors.forename: Thomas
authors.initials: T
authors.lastname: Cremer
authors.forename: Patricia
authors.initials: P
authors.lastname: Le Baccon
authors.forename: Edith
authors.initials: E
authors.lastname: Heard
authors.forename: Roland
authors.initials: R
authors.lastname: Eils
authors.forename: Karl
authors.initials: K
authors.lastname: Rohr
mesh_terms: D000465:Algorithms; D001185:Artificial Intelligence; D002467:Cell Nucleus / Q000648:ultrastructure*; D007089:Image Enhancement / Q000379:methods*; D007090:Image Interpretation, Computer-Assisted / Q000379:methods*; D021621:Imaging, Three-Dimensional / Q000379:methods*; D036641:Microscopy, Fluorescence, Multiphoton / Q000379:methods*; D010363:Pattern Recognition, Automated / Q000379:methods*; D015203:Reproducibility of Results; D012680:Sensitivity and Specificity; D013382:Subtraction Technique