Browsing by Author "Uslu, Fatma"

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Automated quantification of immunomagnetic beads and leukemia cells from optical microscope images
(ELSEVIER SCI LTD, THE BOULEVARD, LANGFORD LANE, KIDLINGTON, OXFORD OX5 1GB, OXON, ENGLAND, 2019) Uslu, Fatma; Icoz, Kutay); Tasdemir, Kasim; Yilmaz, Bulent; 0000-0003-4542-2728; 0000-0002-0947-6166; AGÜ, Mühendislik Fakültesi, Elektrik - Elektronik Mühendisliği Bölümü
Quantification of tumor cells is crucial for early detection and monitoring the progress of cancer. Several methods have been developed for detecting tumor cells. However, automated quantification of cells in the presence of immunomagnetic beads has not been studied. In this study, we developed computer vision based algorithms to quantify the leukemia cells captured and separated by micron size immunomagnetic beads. Color, size based object identification and machine learning based methods were implemented to quantify targets in the images recorded by a bright field microscope. Images acquired by a 40x or a 20x objective were analyzed, the immunomagnetic beads were detected with an error rate of 0.0171 and 0.0384 respectively. Our results reveal that the proposed method attains 91.6% precision for the 40x objective and 79.7% for the 20x objective. This algorithm has the potential to be the signal readout mechanism of a biochip for cell detection. (C) 2019 Elsevier Ltd. All rights reserved.
Image-analysis based readout method for biochip: Automated quantification of immunomagnetic beads, micropads and patient leukemia cell
(PERGAMON-ELSEVIER SCIENCE LTD, THE BOULEVARD, LANGFORD LANE, KIDLINGTON, OXFORD OX5 1GB, ENGLAND, 2020) Uslu, Fatma; Icoz, Kutay; Tasdemir, Kasim; Dogan, Refika S.; Yilmaz, Bulent; 0000-0002-0947-6166; 0000-0003-4542-2728; AGÜ, Mühendislik Fakültesi, Elektrik - Elektronik Mühendisliği Bölümü
For diagnosing and monitoring the progress of cancer, detection and quantification of tumor cells is utmost important. Beside standard bench top instruments, several biochip-based methods have been developed for this purpose. Our biochip design incorporates micron size immunomagnetic beads together with micropad arrays, thus requires automated detection and quantification of not only cells but also the micropads and the immunomagnetic beads. The main purpose of the biochip is to capture target cells having different antigens simultaneously. In this proposed study, a digital image processing-based method to quantify the leukemia cells, immunomagnetic beads and micropads was developed as a readout method for the biochip. Color, size-based object detection and object segmentation methods were implemented to detect structures in the images acquired from the biochip by a bright field optical microscope. It has been shown that manual counting and flow cytometry results are in good agreement with the developed automated counting. Average precision is 85 % and average error rate is 13 % for all images of patient samples, average precision is 99 % and average error rate is 1% for cell culture images. With the optimized micropad size, proposed method can reach up to 95 % precision rate for patient samples with an execution time of 90 s per image.
Image-Processing Based Signal Readout Method for MRD Biochip
(IEEE, 345 E 47TH ST, NEW YORK, NY 10017 USA, 2019) Uslu, Fatma; Icoz, Kutay; Tasdemir, Kasim; 0000-0002-0947-6166; 0000-0003-4542-2728; AGÜ, Mühendislik Fakültesi, Elektrik - Elektronik Mühendisliği Bölümü
The response of the cancer patients to chemotherapy treatment varies from person to person. For some patients cancer cells are resistant to treatment and these cells can relapse again which is known as minimal residual disease. A microfluidic-based biochip capable of monitoring minimal residual disease is under development by our research group. The role of the biochip is to capture the target cells, which were separated by immunomagnetic beads on micro square tiles. Then biochips are imaged using a bright field optical microscope and it is planned to perform image-processing methods to detect the target cells, immunomagnetic beads and micro tiles. In this work the current progress of image processing methods for differentiating the immunomagnetic beads and micro tiles is presented.