Difference between revisions of "Retina Image Analysis"
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*Slides: [[File:Retina image analysis.pptx]] | *Slides: [[File:Retina image analysis.pptx]] | ||
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<big>Retina Image Analysis</big> | <big>Retina Image Analysis</big> | ||
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Teaching Assistant: Michael Beyeler</small> | Teaching Assistant: Michael Beyeler</small> | ||
| − | + | == Introduction == | |
We wanted to know if we can link tortuosity of the blood vessel in the eyes with cardiovascular diseases by using programming and bioinformatics. | We wanted to know if we can link tortuosity of the blood vessel in the eyes with cardiovascular diseases by using programming and bioinformatics. | ||
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This project is quite interesting because it allows us to have a mathematical insight into the determination of diseases and comorbidity risks. Moreover, since an eye fundus is a less invasive physical exam, allowing us to see well the conditions of the blood vessels in a very short amount of time, it seems that it can be a very good exam, and maybe can replace the actuals vascular exams that are invasive and take a long time to be made. | This project is quite interesting because it allows us to have a mathematical insight into the determination of diseases and comorbidity risks. Moreover, since an eye fundus is a less invasive physical exam, allowing us to see well the conditions of the blood vessels in a very short amount of time, it seems that it can be a very good exam, and maybe can replace the actuals vascular exams that are invasive and take a long time to be made. | ||
| − | + | == Problematic / Hypothesis == | |
| + | |||
| + | |||
| + | == Material and Methods == | ||
| − | + | === Material === | |
| + | |||
| + | === Method === | ||
| + | |||
| + | ==== ARIA ==== | ||
It is a software originally used for measuring the tortuosity of a plant's roots. In fact, ARIA stands for '''A'''utomatic '''R'''oot '''I'''mage '''A'''nalysis, and has been shown at first in this [https://journals.plos.org/plosone/article?id=10.1371/journal.pone.0108255 paper]. Here, it has been used to measure the tortuosity of blood vessels in fundus images. | It is a software originally used for measuring the tortuosity of a plant's roots. In fact, ARIA stands for '''A'''utomatic '''R'''oot '''I'''mage '''A'''nalysis, and has been shown at first in this [https://journals.plos.org/plosone/article?id=10.1371/journal.pone.0108255 paper]. Here, it has been used to measure the tortuosity of blood vessels in fundus images. | ||
| − | + | ==== Tortuosity measurement : ==== | |
We used the density factor (called DF) to calculate the tortuosity of the blood vessels. It consists of the ratio between the length of a line and the length between its first and last point. | We used the density factor (called DF) to calculate the tortuosity of the blood vessels. It consists of the ratio between the length of a line and the length between its first and last point. | ||
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| − | + | ==== Statistical tools : ==== | |
We used the quantile method to determine the outliers of our DF: all the DFs that were above the 3rd quantile were set as irrelevant. | We used the quantile method to determine the outliers of our DF: all the DFs that were above the 3rd quantile were set as irrelevant. | ||
| − | + | == Results == | |
| + | |||
| + | First, we had to plot for one fundus image of the blood vessels and adapt the diameter. | ||
| + | |||
| + | == Discussion == | ||
| + | |||
| + | == Conclusion == | ||
| + | |||
| + | == References == | ||
| + | # ARIA | ||
| + | # Cheung, Carol Yim-Lui et al. “[https://pubmed.ncbi.nlm.nih.gov/21146228/ Retinal vascular tortuosity, blood pressure, and cardiovascular risk factors.]” Ophthalmology vol. 118,5 (2011): 812-8. doi:10.1016/j.ophtha.2010.08.045 | ||
| + | # Strandberg, Timo E, and Kaisu Pitkala. [https://pubmed.ncbi.nlm.nih.gov/12698068/ “What is the most important component of blood pressure: systolic, diastolic or pulse pressure?.”] Current opinion in nephrology and hypertension vol. 12,3 (2003): 293-7. doi:10.1097/00041552-200305000-00011 | ||
| + | |||
| + | == Why was this project a challenge? == | ||
| + | |||
| + | ==== PDF Files of our work ==== | ||
| + | |||
| + | You can find the PDF of our work on R here for the small dataset. | ||
| + | |||
| + | You can find our script here. | ||
| + | |||
| + | You can find our intermediate presentation here. | ||
| − | + | You can find our final PDF report here. | |
| − | |||
| − | + | You can find our final presentation here. | |
Revision as of 15:17, 15 May 2021
- Project name: Retina Image Analysis
- Tutor: Michael Beyeler (michael [dot] beyeler [at] unil [dot] ch)
- Slides: File:Retina image analysis.pptx
Retina Image Analysis
Participant : Alexandre Jann, Maylis Touya, Paola Zanchi
Teaching Assistant: Michael Beyeler
Contents
Introduction
We wanted to know if we can link tortuosity of the blood vessel in the eyes with cardiovascular diseases by using programming and bioinformatics.
Why is this project interesting?
This project is quite interesting because it allows us to have a mathematical insight into the determination of diseases and comorbidity risks. Moreover, since an eye fundus is a less invasive physical exam, allowing us to see well the conditions of the blood vessels in a very short amount of time, it seems that it can be a very good exam, and maybe can replace the actuals vascular exams that are invasive and take a long time to be made.
Problematic / Hypothesis
Material and Methods
Material
Method
ARIA
It is a software originally used for measuring the tortuosity of a plant's roots. In fact, ARIA stands for Automatic Root Image Analysis, and has been shown at first in this paper. Here, it has been used to measure the tortuosity of blood vessels in fundus images.
Tortuosity measurement :
We used the density factor (called DF) to calculate the tortuosity of the blood vessels. It consists of the ratio between the length of a line and the length between its first and last point.
The formula for the distance ratio (DF) with the total length of the segment (numerator) divided by the
Statistical tools :
We used the quantile method to determine the outliers of our DF: all the DFs that were above the 3rd quantile were set as irrelevant.
Results
First, we had to plot for one fundus image of the blood vessels and adapt the diameter.
Discussion
Conclusion
References
- ARIA
- Cheung, Carol Yim-Lui et al. “Retinal vascular tortuosity, blood pressure, and cardiovascular risk factors.” Ophthalmology vol. 118,5 (2011): 812-8. doi:10.1016/j.ophtha.2010.08.045
- Strandberg, Timo E, and Kaisu Pitkala. “What is the most important component of blood pressure: systolic, diastolic or pulse pressure?.” Current opinion in nephrology and hypertension vol. 12,3 (2003): 293-7. doi:10.1097/00041552-200305000-00011
Why was this project a challenge?
PDF Files of our work
You can find the PDF of our work on R here for the small dataset.
You can find our script here.
You can find our intermediate presentation here.
You can find our final PDF report here.
You can find our final presentation here.
