Registration and 3D visualization of large microscopy images

Kishore Mosaliganti; Tony Pan; Richard Sharp; Randall Ridgway; Srivathsan Iyengar; Alexandra Gulacy; Pamela Wenzel; Alain de Bruin; Raghu Machiraju; Kun Huang; Gustavo Leone; Joel Saltz

doi:10.1117/12.653505

10 March 2006 Registration and 3D visualization of large microscopy images

Kishore Mosaliganti, Tony Pan, Richard Sharp, Randall Ridgway, Srivathsan Iyengar, Alexandra Gulacy, Pamela Wenzel, Alain de Bruin, Raghu Machiraju, Kun Huang, Gustavo Leone, Joel Saltz

Author Affiliations +

Proceedings Volume 6144, Medical Imaging 2006: Image Processing; 61442V (2006) https://doi.org/10.1117/12.653505
Event: Medical Imaging, 2006, San Diego, California, United States

Abstract

Inactivation of the retinoblastoma gene in mouse embryos causes tissue infiltrations into critical sections of the placenta, which has been shown to affect fetal survivability. Our collaborators in cancer genetics are extremely interested in examining the three dimensional nature of these infiltrations given a stack of two dimensional light microscopy images. Three sets of wildtype and mutant placentas was sectioned serially and digitized using a commercial light microscopy scanner. Each individual placenta dataset consisted of approximately 1000 images totaling 700 GB in size, which were registered into a volumetric dataset using National Library of Medicine's (NIH/NLM) Insight Segmentation and Registration Toolkit (ITK). This paper describes our method for image registration to aid in volume visualization of tissue level intermixing for both wildtype and Rb^- specimens. The registration process faces many challenges arising from the large image sizes, damages during sectioning, staining gradients both within and across sections, and background noise. These issues limit the direct application of standard registration techniques due to frequent convergence to local solutions. In this work, we develop a mixture of automated and semi-automated enhancements with ground-truth validation for the mutual information-based registration algorithm. Our final volume renderings clearly show tissue intermixing differences between both wildtype and Rb^- specimens which are not obvious prior to registration.

Citation Download Citation

Kishore Mosaliganti, Tony Pan, Richard Sharp, Randall Ridgway, Srivathsan Iyengar, Alexandra Gulacy, Pamela Wenzel, Alain de Bruin, Raghu Machiraju, Kun Huang, Gustavo Leone, and Joel Saltz "Registration and 3D visualization of large microscopy images", Proc. SPIE 6144, Medical Imaging 2006: Image Processing, 61442V (10 March 2006); https://doi.org/10.1117/12.653505

ACCESS THE FULL ARTICLE

INSTITUTIONAL
Select your institution to access the SPIE Digital Library.

SELECT YOUR INSTITUTION

PERSONAL
Sign in with your SPIE account to access your personal subscriptions or to use specific features such as save to my library, sign up for alerts, save searches, etc.

PERSONAL SIGN IN

No SPIE Account? Create one

PURCHASE THIS CONTENT

SUBSCRIBE TO DIGITAL LIBRARY

50 downloads per 1-year subscription

Members: $195

Non-members: $335 ADD TO CART

25 downloads per 1 - year subscription

Members: $145

Non-members: $250 ADD TO CART

PURCHASE SINGLE ARTICLE

Includes PDF, HTML & Video, when available