PUBLICATION
OpenBloodFlow: A User-Friendly OpenCV-Based Software Package for Blood Flow Velocity and Blood Cell Count Measurement for Fish Embryos
- Authors
- Farhan, A., Saputra, F., Suryanto, M.E., Humayun, F., Pajimna, R.M.B., Vasquez, R.D., Roldan, M.J.M., Audira, G., Lai, H.T., Lai, Y.H., Hsiao, C.D.
- ID
- ZDB-PUB-221028-11
- Date
- 2022
- Source
- Biology 11(10): (Journal)
- Registered Authors
- Hsiao, Chung-Der
- Keywords
- Gunner Farneback algorithm, OpenCV, blood flow, medaka, zebrafish
- MeSH Terms
- none
- PubMed
- 36290375 Full text @ Biology (Basel)
Citation
Farhan, A., Saputra, F., Suryanto, M.E., Humayun, F., Pajimna, R.M.B., Vasquez, R.D., Roldan, M.J.M., Audira, G., Lai, H.T., Lai, Y.H., Hsiao, C.D. (2022) OpenBloodFlow: A User-Friendly OpenCV-Based Software Package for Blood Flow Velocity and Blood Cell Count Measurement for Fish Embryos. Biology. 11(10):.
Abstract
The transparent appearance of fish embryos provides an excellent assessment feature for observing cardiovascular function in vivo. Previously, methods to conduct vascular function assessment were based on measuring blood-flow velocity using third-party software. In this study, we reported a simple software, free of costs and skills, called OpenBloodFlow, which can measure blood flow velocity and count blood cells in fish embryos for the first time. First, videos captured by high-speed CCD were processed for better image stabilization and contrast. Next, the optical flow of moving objects was extracted from the non-moving background in a frame-by-frame manner. Finally, blood flow velocity was calculated by the Gunner Farneback algorithm in Python. Data validation with zebrafish and medaka embryos in OpenBloodFlow was consistent with our previously published ImageJ-based method. We demonstrated consistent blood flow alterations by either OpenBloodFlow or ImageJ in the dorsal aorta of zebrafish embryos when exposed to either phenylhydrazine or ractopamine. In addition, we validated that OpenBloodFlow was able to conduct precise blood cell counting. In this study, we provide an easy and fully automatic programming for blood flow velocity calculation and blood cell counting that is useful for toxicology and pharmacology studies in fish.
Genes / Markers
Expression
Phenotype
Mutations / Transgenics
Human Disease / Model
Sequence Targeting Reagents
Fish
Orthology
Engineered Foreign Genes
Mapping