Method for measurement of collagen monomer orientation in fluorescence microscopy

Rodrigo P. Alzola*, Jose Delpiano, Anuj Gajjar, Rickard Stureborg, Seyed Mohammad Siadat, Jeffrey W. Ruberti, Charles A. Dimarzio

*Corresponding author for this work

Research output: Chapter in Book/Report/Conference proceedingChapterpeer-review


Collagen is one of the most important proteins in mammals, conforming most animal tissues. This work explores how a basic collagen monomer unit is visualized using fluorescence microscopy and how its spatial orientation is determined. Defining the orientation of collagen monomers is not a trivial problem, as the particle has a weak contrast and is relatively small. Possible attach fluorescence tags for contrast, but the size is still a problem for detecting orientation using fluorescence microscopy. This document presents a simulation of the visualization of collagen monomers and two methods for detecting monomer and classifying its orientation. A modify Gabor filter set, and an automatic classifier, trained by convolutional neuronal network (CNN), were used. By evaluating the performance of these two approaches compare to human observation, our results show that it is possible to determine the location and orientation of a single monomer with fluorescence microscopy. These findings can contribute to understanding collagen elements as collagen fibril.

Original languageEnglish
Title of host publicationThree-Dimensional and Multidimensional Microscopy
Subtitle of host publicationImage Acquisition and Processing XXVIII
EditorsThomas G. Brown, Tony Wilson, Laura Waller
ISBN (Electronic)9781510641334
ISBN (Print)9781510641334
StatePublished - 4 Mar 2021
EventThree-Dimensional and Multidimensional Microscopy: Image Acquisition and Processing XXVIII 2021 - Virtual, Online, United States
Duration: 6 Mar 202111 Mar 2021

Publication series

NameProgress in Biomedical Optics and Imaging - Proceedings of SPIE
ISSN (Print)1605-7422


ConferenceThree-Dimensional and Multidimensional Microscopy: Image Acquisition and Processing XXVIII 2021
Country/TerritoryUnited States
CityVirtual, Online

Bibliographical note

Publisher Copyright:
© 2021 Copyright SPIE.


  • Collagen
  • computer vision
  • fluorescence microscopy
  • machine learning


Dive into the research topics of 'Method for measurement of collagen monomer orientation in fluorescence microscopy'. Together they form a unique fingerprint.

Cite this