Video Database for Cellular Tracking Created
An example of video analysis of embryonic development of a C.elengans worm. The left- hand column shows the original images obtained with an optic microscope. The right-hand column shows the analysis results: Each color circle identifies one of the cells. Credit: Cell Tracking Challenge.
Universidad Carlos III de Madrid (UC3M), the University Hospital Gregorio Marañón (HGUGM) and Universidad de Navarra have, together with other international institutions, developed a video database for cellular tracking that can be used to determine alterations involved in illnesses such as cancer.
The results of this research have been recently presented in the scientific journal Nature Methods, in an article that gathers data from the last three editions of the Cell Tracking Challenge. This competition, which invites scientists from all over the world to include videos on cellular migration, has registered participation from 21 research groups throughout 18 countries. In total, 52 videos with 92 GB have been analyzed. Some are synthetic, that is, they are created through software that simulates cells, while others are real, mainly obtained through bidimensional and tridimensional microscopy. “In addition to the videos, this new database provides the code to interpret them, that is, the segmentation algorithm and the cellular tracking and the tools to evaluate these algorithms in an objective manner,” explained one of the study’s authors, Arrate Muñoz Barrutia, professor in the UC3M Bioengineering and Aerospace Engineering department and HGUGM researcher.
Throughout an individual’s life, above all during embryonic development, a large quantity of cells proliferates, and if necessary, they differentiate. These cells must migrate to different parts of the human body to carry out their functions. This happens in normal processes (for example, red blood cells migration), as well as in other anomalous processes, such as cancer, when the cells leave the primary tumor to generate metastasis and colonize other tissues. “Studying the movement and proliferation of cells, we can know how the living being’s organisms work, in normal processes as well as in alterations involved in illnesses, such as cancer,” explained the study’s main author, Carlos Ortiz de Solórzano, Director of the Plataforma de Imagen y del Laboratorio de Modelos Preclínicos y Herramientas de Análisis del Center for Applied Medical Research of the Universidad de Navarra. “The cellular tracking is also a very useful tool for finding out its genealogy, that is, where the cells of an organ come from, so that we can study the initial processes of an illness,” he added.
To understand how cellular migration alters in cancer or other illnesses, or how a metastasis originates “it is often necessary to identify the cells in an individual way and track them over time,” Arrate Muñoz Barrutia explained. The study, published in Nature Methods, is useful for researchers who use cellular tracking methods in their studies. All of the material used in the Cell Tracking Challenge can serve as a guide to help in decision making regarding which algorithmic solution to use in different cases, thereby obtaining more precise information that contributes to advance knowledge in the biomedical field. “For example, we have confirmed that the algorithms that work best are those that use learning techniques and those that carry out the tracking in its whole taking into account the cell life,” Carlos Ortiz de Solórzano pointed out.
The use of this method has endless applications, according to the researchers. For example, it can be applied in studies on embryonic development, research on formation mechanisms of different organs and in the response to therapy for different illnesses, such as cancer. “One of the characteristics of tumor cells is a greater motility and cellular proliferation. These two aspects can be quantified in a very precise way based on the delineation of the individual cells and the tracking over time,” Muñoz-Barrutia affirmed.
Scientists who have participated in this research are from numerous international institutions, such as the Pasteur Institute (France), the Institute of Molecular and Cell Biology of Singapore, the Karlsruhe Institute of Technology (Germany), the Max Planck Institute of Molecular Cell Biology and Genetics (Germany), the Royal Institute of Technology of Stockholm (Sweden) and the universities Delft (The Netherlands), Fribourg and Heidelberg (Germany), Leiden (The Netherlands), London (United Kingdom) Masaryk (Czech Republic), Nottingham (United Kingdom), Oporto (Portugal), Stanford (USA) and Zurich (Switzerland).
This article has been republished from materials provided by UC3M. Note: material may have been edited for length and content. For further information, please contact the cited source.
Ulman, V., Maška, M., Magnusson, K. E., Ronneberger, O., Haubold, C., Harder, N., . . . Ortiz-De-Solorzano, C. (2017). An objective comparison of cell-tracking algorithms. Nature Methods, 14(12), 1141-1152. doi:10.1038/nmeth.4473