Hatice Ceylan Koydemir

Dr. Hatice Ceylan Koydemir

University of California, Los Angeles
orcid

Research Focus & Metrics

Academic Career Length

19Years (2008-Present)

(Calculated once Scilit publication data is synced: current year − year of first publication + 1)

Representative Publications

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12 June 2018 in Annual Review of Analytical Chemistry
Verified
Journal Article
Closed access
Hatice Ceylan KoydemirHatice Ceylan Koydemir
Hatice Ceylan Koydemir
Aydogan OzcanAydogan Ozcan
Aydogan Ozcan
Mobile health technologies offer great promise for reducing healthcare costs and improving patient care. Wearable and implantable technologies are contributing to a transformation in the mobile health era in terms of improving healthcare and health outcomes and providing real-time guidance on improved health management and tracking. In this article, we review the biomedical applications of wearable and implantable medical devices and sensors, ranging from monitoring to prevention of diseases, as well as the materials used in the fabrication of these devices and the standards for wireless medical devices and mobile applications. We conclude by discussing some of the technical challenges in wearable and implantable technology and possible solutions for overcoming these difficulties.

10 July 2020 in Light: Science & Applications
Verified
Journal Article
Open access
PDF file
HWHongda Wang
Hongda Wang
Hatice Ceylan KoydemirHatice Ceylan Koydemir
Hatice Ceylan Koydemir
YQYunzhe Qiu
Yunzhe Qiu
BBBijie Bai
Bijie Bai
YZYibo Zhang
Yibo Zhang
Aydogan OzcanAydogan Ozcan
Aydogan Ozcan
Early identification of pathogenic bacteria in food, water, and bodily fluids is very important and yet challenging, owing to sample complexities and large sample volumes that need to be rapidly screened. Existing screening methods based on plate counting or molecular analysis present various tradeoffs with regard to the detection time, accuracy/sensitivity, cost, and sample preparation complexity. Here, we present a computational live bacteria detection system that periodically captures coherent microscopy images of bacterial growth inside a 60-mm-diameter agar plate and analyses these time-lapsed holograms using deep neural networks for the rapid detection of bacterial growth and the classification of the corresponding species. The performance of our system was demonstrated by the rapid detection of Escherichia coli and total coliform bacteria (i.e., Klebsiella aerogenes and Klebsiella pneumoniae subsp. pneumoniae) in water samples, shortening the detection time by >12 h compared to the Environmental Protection Agency (EPA)-approved methods. Using the preincubation of samples in growth media, our system achieved a limit of detection (LOD) of ~1 colony forming unit (CFU)/L in ≤9 h of total test time. This platform is highly cost-effective (~$0.6/test) and has high-throughput with a scanning speed of 24 cm2/min over the entire plate surface, making it highly suitable for integration with the existing methods currently used for bacteria detection on agar plates. Powered by deep learning, this automated and cost-effective live bacteria detection platform can be transformative for a wide range of applications in microbiology by significantly reducing the detection time and automating the identification of colonies without labelling or the need for an expert.

15 March 2018 in ACS Photonics
Verified
Journal Article
Closed access
YRYair Rivenson
Yair Rivenson
Hatice Ceylan KoydemirHatice Ceylan Koydemir
Hatice Ceylan Koydemir
HWHongda Wang
Hongda Wang
ZWZhensong Wei
Zhensong Wei
ZRZhengshuang Ren
Zhengshuang Ren
Aydogan OzcanAydogan Ozcan
Aydogan Ozcan

16 December 2014 in Lab on a Chip
Verified
Journal Article
Closed access
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Hatice Ceylan KoydemirHatice Ceylan Koydemir
Hatice Ceylan Koydemir
ZGZoltan Gorocs
Zoltan Gorocs
DTDerek Tseng
Derek Tseng
BCBingen Cortazar
Bingen Cortazar
SFSteve Feng
Steve Feng
Aydogan OzcanAydogan Ozcan
Aydogan Ozcan
Rapid and sensitive detection of waterborne pathogens in drinkable and recreational water sources is crucial for treating and preventing the spread of water related diseases, especially in resource-limited settings. Here we present a field-portable and cost-effective platform for detection and quantification of Giardia lamblia cysts, one of the most common waterborne parasites, which has a thick cell wall that makes it resistant to most water disinfection techniques including chlorination. The platform consists of a smartphone coupled with an opto-mechanical attachment weighing ~205 g, which utilizes a hand-held fluorescence microscope design aligned with the camera unit of the smartphone to image custom-designed disposable water sample cassettes. Each sample cassette is composed of absorbent pads and mechanical filter membranes; a membrane with 8 μm pore size is used as a porous spacing layer to prevent the backflow of particles to the upper membrane, while the top membrane with 5 μm pore size is used to capture the individual Giardia cysts that are fluorescently labeled. A fluorescence image of the filter surface (field-of-view: ~0.8 cm2) is captured and wirelessly transmitted via the mobile-phone to our servers for rapid processing using a machine learning algorithm that is trained on statistical features of Giardia cysts to automatically detect and count the cysts captured on the membrane. The results are then transmitted back to the mobile-phone in less than 2 minutes and are displayed through a smart application running on the phone. This mobile platform, along with our custom-developed sample preparation protocol, enables analysis of large volumes of water (e.g., 10–20 mL) for automated detection and enumeration of Giardia cysts in ~1 hour, including all the steps of sample preparation and analysis. We evaluated the performance of this approach using flow-cytometer-enumerated Giardia-contaminated water samples, demonstrating an average cyst capture efficiency of ~79% on our filter membrane along with a machine learning based cyst counting sensitivity of ~84%, yielding a limit-of-detection of ~12 cysts per 10 mL. Providing rapid detection and quantification of microorganisms, this field-portable imaging and sensing platform running on a mobile-phone could be useful for water quality monitoring in field and resource-limited settings.

19 September 2018 in Light: Science & Applications
Verified
Journal Article
Open access
PDF file
ZGZoltán Gӧrӧcs
Zoltán Gӧrӧcs
MTMiu Tamamitsu
Miu Tamamitsu
VBVittorio Bianco
Vittorio Bianco
PWPatrick Wolf
Patrick Wolf
SRShounak Roy
Shounak Roy
Aydogan OzcanAydogan Ozcan
Aydogan Ozcan
We report a deep learning-enabled field-portable and cost-effective imaging flow cytometer that automatically captures phase-contrast color images of the contents of a continuously flowing water sample at a throughput of 100 mL/h. The device is based on partially coherent lens-free holographic microscopy and acquires the diffraction patterns of flowing micro-objects inside a microfluidic channel. These holographic diffraction patterns are reconstructed in real time using a deep learning-based phase-recovery and image-reconstruction method to produce a color image of each micro-object without the use of external labeling. Motion blur is eliminated by simultaneously illuminating the sample with red, green, and blue light-emitting diodes that are pulsed. Operated by a laptop computer, this portable device measures 15.5 cm × 15 cm × 12.5 cm, weighs 1 kg, and compared to standard imaging flow cytometers, it provides extreme reductions of cost, size and weight while also providing a high volumetric throughput over a large object size range. We demonstrated the capabilities of this device by measuring ocean samples at the Los Angeles coastline and obtaining images of its micro- and nanoplankton composition. Furthermore, we measured the concentration of a potentially toxic alga (Pseudo-nitzschia) in six public beaches in Los Angeles and achieved good agreement with measurements conducted by the California Department of Public Health. The cost-effectiveness, compactness, and simplicity of this computational platform might lead to the creation of a network of imaging flow cytometers for large-scale and continuous monitoring of the ocean microbiome, including its plankton composition.

22 May 2020 in npj Digital Medicine
Verified
Journal Article
Open access
PDF file
KHKevin de Haan
Kevin de Haan
Hatice Ceylan KoydemirHatice Ceylan Koydemir
Hatice Ceylan Koydemir
YRYair Rivenson
Yair Rivenson
DTDerek Tseng
Derek Tseng
EDElizabeth Van Dyne
Elizabeth Van Dyne
Aydogan OzcanAydogan Ozcan
Aydogan Ozcan
Sickle cell disease (SCD) is a major public health priority throughout much of the world, affecting millions of people. In many regions, particularly those in resource-limited settings, SCD is not consistently diagnosed. In Africa, where the majority of SCD patients reside, more than 50% of the 0.2–0.3 million children born with SCD each year will die from it; many of these deaths are in fact preventable with correct diagnosis and treatment. Here, we present a deep learning framework which can perform automatic screening of sickle cells in blood smears using a smartphone microscope. This framework uses two distinct, complementary deep neural networks. The first neural network enhances and standardizes the blood smear images captured by the smartphone microscope, spatially and spectrally matching the image quality of a laboratory-grade benchtop microscope. The second network acts on the output of the first image enhancement neural network and is used to perform the semantic segmentation between healthy and sickle cells within a blood smear. These segmented images are then used to rapidly determine the SCD diagnosis per patient. We blindly tested this mobile sickle cell detection method using blood smears from 96 unique patients (including 32 SCD patients) that were imaged by our smartphone microscope, and achieved ~98% accuracy, with an area-under-the-curve of 0.998. With its high accuracy, this mobile and cost-effective method has the potential to be used as a screening tool for SCD and other blood cell disorders in resource-limited settings.