Segmentation and assessment of structural plasticity of hippocampal dendritic spines from 3D confocal light microscopy

Subhadip Basu; Punam Kumar Saha; Ewa Baczynska; Matylda Roszkowska; Marta Magnowska; Nirmal Das; Indranil Guha; Jakub Wlodarczyk

doi:10.1117/12.2292924

12 March 2018 Segmentation and assessment of structural plasticity of hippocampal dendritic spines from 3D confocal light microscopy

Subhadip Basu, Punam Kumar Saha, Ewa Baczynska, Matylda Roszkowska, Marta Magnowska, Nirmal Das, Indranil Guha, Jakub Wlodarczyk

Author Affiliations +

Proceedings Volume 10578, Medical Imaging 2018: Biomedical Applications in Molecular, Structural, and Functional Imaging; 105780E (2018) https://doi.org/10.1117/12.2292924
Event: SPIE Medical Imaging, 2018, Houston, Texas, United States

Abstract

We present new methods for segmentation of hippocampal dendritic spines in 3D confocal light microscopy and computation of 3-D morphological attributes characterizing dendritic spine plasticity. The methods are applied on 3D confocal light microscopy images of dendritic spines from dissociated hippocampal cultures. The segmentation method is based on the principle of multi-scale opening which uses a set of user-specified seeds and iteratively segments structures at different scales starting at a large scale and progressing toward finer scales. The accuracy of the segmentation method is evaluated by comparing its results with the gold standard obtained by manual labelling. The reproducibility of the overall method involving segmentation as well as computation of structural measures is assessed by comparing the values of structural measures derived from segmentation results generated using seeds from three mutually-blinded users. Finally, the performance of the overall method is examined in terms of its ability to characterize spine morphological changes after chemically induced long-term potentiation.

Conference Presentation

Citation Download Citation

Subhadip Basu, Punam Kumar Saha, Ewa Baczynska, Matylda Roszkowska, Marta Magnowska, Nirmal Das, Indranil Guha, and Jakub Wlodarczyk "Segmentation and assessment of structural plasticity of hippocampal dendritic spines from 3D confocal light microscopy", Proc. SPIE 10578, Medical Imaging 2018: Biomedical Applications in Molecular, Structural, and Functional Imaging, 105780E (12 March 2018); https://doi.org/10.1117/12.2292924

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