Article
Chemistry, Analytical
Shaowei Li, Ziyi Luo, Renlong Zhang, Hao Xu, Ting Zhou, Liwei Liu, Junle Qu
Summary: Alzheimer's disease (AD) is one of the disorders with the highest incidence worldwide due to the increase in the average age of humans, mainly caused by abnormal accumulation of amyloid beta protein (A beta). Distinguishing lesion areas in AD patients through spectroscopy and imaging methods based on coherent anti-Stokes Raman scattering (CARS) can provide a new approach for clinical diagnosis and basic research.
Review
Geriatrics & Gerontology
Kai Liu, Jiasong Li, Raksha Raghunathan, Hong Zhao, Xuping Li, Stephen T. C. Wong
Summary: Alzheimer's disease (AD) is a major neurodegenerative disease that poses a significant social and economic burden with unclear pathogenesis and limited treatment options. Traditional diagnostic methods have limitations, while label-free optical imaging techniques offer potential for more accurate and detailed analysis of AD biomarkers.
FRONTIERS IN AGING NEUROSCIENCE
(2021)
Article
Biochemical Research Methods
Jianbo Fu, Qingxia Yang, Yongchao Luo, Song Zhang, Jing Tang, Ying Zhang, Hongning Zhang, Hanxiang Xu, Feng Zhu
Summary: Label-free quantification (LFQ) is an important technique in proteomics due to its broad proteome coverage and enhanced reproducibility. In this study, an R package EVALFQ was developed to evaluate and discover well-performing LFQ chains from over 3000 options.
BRIEFINGS IN BIOINFORMATICS
(2022)
Article
Biochemical Research Methods
Jianbo Fu, Qingxia Yang, Yongchao Luo, Song Zhang, Jing Tang, Ying Zhang, Hongning Zhang, Hanxiang Xu, Feng Zhu
Summary: The label-free quantification (LFQ) is a powerful technique in proteomics due to its broad proteome coverage, great dynamic ranges, and enhanced analytical reproducibility. However, determining the well-performing LFQ chain is challenging due to the dependence on data and the diverse possibilities. In this study, a unique R package EVALFQ was developed for performance evaluation of >3000 LFQ chains, utilizing multiple criteria, spiking proteins, and comprehensive assessment. This package is expected to attract broad interests in the field of proteomic quantification.
BRIEFINGS IN BIOINFORMATICS
(2023)
Article
Multidisciplinary Sciences
So Young Choi, Jeonghun Oh, JaeHwang Jung, YongKeun Park, Sang Yup Lee
Summary: In this study, three-dimensional quantitative label-free analysis of PHA granules in individual live bacterial cells was conducted using optical diffraction tomography, revealing the formation and growth characteristics of PHA granules in Cupriavidus necator and recombinant Escherichia coli. The study showed that PHA granules in recombinant E. coli have a higher density and localization polarity compared to those in C. necator, indicating differences in how polymer chains are packed and granules are distributed within the cells. Real-time 3D analyses further highlighted the differences in PHA granule processing during cell division in native and nonnative PHA-producing strains, with the PHA granule-associated protein PhaM playing a key role in these differences.
PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA
(2021)
Article
Chemistry, Analytical
Cen Ding, Changhong Li, Qing Meng, Chengyuan Qian, Changli Zhang, Liu Yang, Xiaohui Wang, Yanqing Wang
Summary: A label-free fluorescent probe (BTS) was reported for dynamic in situ visualization of A beta 40 aggregation. The probe binds to all forms of A beta 40 with high affinity and can monitor the entire A beta aggregation process with high selectivity and sensitivity.
SENSORS AND ACTUATORS B-CHEMICAL
(2021)
Article
Chemistry, Multidisciplinary
Bo Yao, Yunze Yang, Nanxi Yu, Nongjian Tao, Di Wang, Shaopeng Wang, Fenni Zhang
Summary: This article introduces an optical imaging method to measure molecular interactions with live cells by tracking nanometer membrane fluctuations. The elastic properties of the cell are determined through analysis of the data, as well as the binding kinetics of glycoprotein to lectins. The method is anticipated to contribute to the understanding of cell interactions, mechanical assessment of diseases like cancer, and screening of membrane protein targeting drugs.
Article
Clinical Neurology
Susan M. Landau, Tyler J. Ward, Alice Murphy, Leonardo Iaccarino, Theresa M. Harrison, Renaud La Joie, Suzanne Baker, Robert A. Koeppe, William J. Jagust
Summary: This study evaluated several MRI-independent approaches for quantification of positron emission tomography (PET) images. The results showed that MRI-independent methods had high agreement with MRI-dependent quantification in A beta and tau PET images.
ALZHEIMERS & DEMENTIA
(2023)
Article
Biotechnology & Applied Microbiology
Guangli He, Yue Zhou, Mifang Li, Yanzhen Guo, Hang Yin, Baocheng Yang, Shouren Zhang, Yibiao Liu
Summary: An ultrasensitive photoelectrochemical (PEC) sensor based on ZnO@polydopamine/Au nanocomposites was developed for quantitative detection of A beta, showing a wide linear range and low detection limit. Additionally, the sensor exhibited good selectivity, stability, and reproducibility, providing a promising method for advanced PEC immunoassays for AD biomarkers.
FRONTIERS IN BIOENGINEERING AND BIOTECHNOLOGY
(2021)
Review
Nanoscience & Nanotechnology
Meruyert Imanbekova, Sorina Suarasan, Yao Lu, Sarah Jurchuk, Sebastian Wachsmann-Hogiu
Summary: Extracellular vesicles (EVs) are complex biological nanoparticles that play a significant role in the physiology and pathology of cells, organs, and organisms. Detecting specific EVs from the mixture of EVs in body fluids is challenging. Recent research has focused on label-free optical methods that simplify sample preparation and eliminate interfering signals. This review discusses the progress of label-free optical methods used for the detection, counting, and characterization of EVs.
Article
Statistics & Probability
D. Andrew Brown, Christopher S. McMahan, Russell T. Shinohara, Kristin A. Linn
Summary: Understanding early disease mechanisms in the brain is crucial for effective treatment of Alzheimer's disease. Automatic segmentation methods for measuring hippocampal volume via neuroimaging have been developed, but there is a need for improved accuracy. We propose a fully Bayesian label fusion method that incorporates tissue classification information and provides meaningful uncertainty measures. This approach has the potential to improve early detection and tracking of the disease.
JOURNAL OF THE AMERICAN STATISTICAL ASSOCIATION
(2022)
Article
Chemistry, Analytical
Miao Chen, Yizhi Man, Shilin Xu, Hongjing Wu, Pinghua Ling, Feng Gao
Summary: In this study, a simple and label-free colorimetric biosensor was designed based on a triple helix DNA to specifically detect A beta oligomer, which is associated with Alzheimer's disease. The sensor exhibited high sensitivity, low detection limit, and a wide detection range. It was successfully applied for detecting A beta oligomer in both artificial and real cerebrospinal fluids, demonstrating its potential application for state monitoring and pathological studies of Alzheimer's disease.
ANALYTICA CHIMICA ACTA
(2023)
Article
Chemistry, Multidisciplinary
Qiangqiang Shi, Chengzhou Song, Minglong Chen, Jie Xu, Shaoqiu Zheng, Jiajia Tan, Jialin Zhang, Ning Wang, Jinming Hu, Shiyong Liu
Summary: Polymeric nanoparticles (NPs) are commonly used for drug delivery, and their biological behavior is usually tracked using fluorescence or isotope labeling methods. However, these labeling techniques may affect the properties of NPs and result in inaccurate information. It is therefore crucial to develop label-free techniques for accurately assessing the biological fate of polymeric NPs. In this study, discrete oligourethane amphiphiles (DOAs) were used to create nanorods (NRs) with distinct surface functional groups. These NRs can be quantified without labeling and their surface functional groups were found to significantly impact their biological behavior.
JOURNAL OF THE AMERICAN CHEMICAL SOCIETY
(2023)
Article
Chemistry, Analytical
Yuming Jiang, Alexandre Hutton, Caleb W. Cranney, Jesse G. Meyer
Summary: This article introduces an improved direct infusion and ion mobility method for proteome analysis, and proposes a label-free quantification method DISPA-LFQ, which can rapidly identify and quantify proteins in complex mixtures. This technology has important applications in drug screening, biomarker discovery, and clinical analysis.
ANALYTICAL CHEMISTRY
(2022)
Article
Radiology, Nuclear Medicine & Medical Imaging
Jiaying Lu, Zizhao Ju, Min Wang, Xun Sun, Chenhao Jia, Ling Li, Weiqi Bao, Huiwei Zhang, Fangyang Jiao, Huamei Lin, Tzu-Chen Yen, Ruixue Cui, Xiaoli Lan, Qianhua Zhao, Yihui Guan, Chuantao Zuo, Shanghai Memory Study SMS
Summary: This study evaluated the feasibility of quantifying F-18-florzolotau using a MRI-free PET template in AD patients. The results showed high agreement between the MRI-free and MRI-dependent methods in quantification and diagnostic performance. The robustness of the MRI-free approach was confirmed in the validation cohort.
EUROPEAN RADIOLOGY
(2023)
Article
Physics, Applied
Suhyun Kim, Sera Jung, Jonghee Yoon
Summary: Hyperspectral imaging techniques have the ability to identify targets based on their spectral features, and the widely used spectral scanning method using a tunable filter has a poor spectral resolution. To overcome this limitation, a deep-learning model was used to retrieve multispectral information from a red, green, and blue image, and a color chart consisting of 18 colors was proposed as a standard training target. Simulation experiments showed that the deep-learning model trained with synthetic hyperspectral images successfully retrieved high-resolution spectral data.
JOURNAL OF PHYSICS D-APPLIED PHYSICS
(2023)
Article
Optics
InYoung Park, Jonghee Yoon
Summary: The study proposes an adaptive pattern synthesis method to improve the accuracy and performance of structured illumination, which can be applied in various optical applications.
OPTICS AND LASERS IN ENGINEERING
(2023)
Article
Optics
Herve Hugonnet, Seungwoo Shin, YongKeun Park
Summary: Dielectric tensor tomography reconstructs the 3D dielectric tensors of microscopic objects and provides information about their crystalline structure orientations and refractive indices. However, transmission-based dielectric tensor tomography suffers from the missing cone problem, resulting in poor axial resolution, underestimation of refractive index, and halo artifacts. This study explores the application of total variation and positive semi-definiteness regularization to improve artifact reduction in dielectric tensor tomography.
Article
Biochemical Research Methods
Juyeon Park, Su-Jin Shin, Jeongwon Shin, Ariel J. Lee, Moosung Lee, Mahn Jae Lee, Geon Kim, Ji Eun Heo, Kwang Suk Lee, Yongkeun Park
Summary: In this study, stained images and refractive index (RI) tomography were used to quantitatively assess the structural heterogeneities of ccRCC slides obtained from human patients. Machine-learning-assisted segmentation of nuclei and cytoplasm enabled subcellular-level quantification. Malignant regions showed a significant increase in structural heterogeneities compared to benign regions, demonstrating the synergy between RI tomography and stained images in providing quantitative information on ccRCC.
BIOMEDICAL OPTICS EXPRESS
(2023)
Article
Optics
Chungha Lee, Herve Hugonnet, Juyeon Park, Mahn Jae Lee, Weisun Park, Yongkeun Park
Summary: We propose a single-shot refractive index imaging method that can obtain color-coded intensity images of a sample with three optimized illuminations simultaneously. These intensity images can be deconvoluted to obtain the refractive index image of the in-focus slice of the sample.
Article
Multidisciplinary Sciences
Taehyun Kim, Jaeyoon Yoo, Sungho Do, Dong Soo Hwang, YongKeun Park, Yongdae Shin
Summary: The authors found that certain membrane-less condensates in the cell have surprisingly low densities, similar to the surrounding cytoplasm, and are driven by cellular RNA and the crowded environment. These findings contribute to the understanding of the formation and function of membrane-less condensates in the cell.
NATURE COMMUNICATIONS
(2023)
Article
Optics
KyeoReh Lee, Jun Lim, Su Yong Lee, YongKeun Park
Summary: Coherent speckle-correlation imaging (CSI) utilizes a designed X-ray diffuser to retrieve the complex sample field from a single shot measurement, achieving high-resolution imaging without any assumptions on the samples or measurements. The spatial resolution of CSI reaches 13.9 nm at 5.46 keV, surpassing the feature size of the diffuser used (300 nm). The high-resolution imaging capability of CSI is theoretically explained, and it is expected to be a versatile tool for exploring the nanometer world.
LIGHT-SCIENCE & APPLICATIONS
(2023)
Article
Multidisciplinary Sciences
Soowon Kang, Woohyeok Choi, Cheul Young Park, Narae Cha, Auk Kim, Ahsan Habib Khandoker, Leontios Hadjileontiadis, Heepyung Kim, Yong Jeong, Uichin Lee
Summary: With the widespread use of low-cost mobile and wearable sensors, studies have utilized them to track and analyze mental well-being, productivity, and behavioral patterns. However, the availability of open datasets collected in real-world settings with affective and cognitive state labels such as emotion, stress, and attention is still limited, impeding research advances in affective computing and human-computer interaction. This study introduces K-EmoPhone, a real-world multimodal dataset gathered from 77 students over a span of seven days. The dataset includes continuous monitoring of peripheral physiological signals and mobility data from off-the-shelf devices, as well as context and interaction data from individuals' smartphones, along with 5,582 self-reported affect states obtained through experience sampling method. The authors expect this dataset to contribute to the development of affective computing, emotion intelligence technologies, and attention management based on mobile and wearable sensor data.
Article
Optics
Herve Hugonnet, Moosung Lee, Seungwoo Shin, YongKeun Park
Summary: In this study, a new dielectric tensor tomography algorithm was developed to fully characterize highly scattering birefringent samples. By solving the vectoral inverse scattering problem and accounting for multiple light scattering, the algorithm enabled the reconstruction of the 3 x 3 dielectric tensor of birefringent samples at every three-dimensional position. Experimental validation demonstrated the feasibility of the algorithm on both synthetic and biologically birefringent samples.
Article
Multidisciplinary Sciences
Jeonghun Oh, Herve Hugonnet, YongKeun Park
Summary: The authors propose a holographic image sensor that can reconstruct the complex amplitude of scattered light from a single-intensity image using reciprocal diffractive imaging. This allows for holographic imaging of three-dimensional diffusive objects and potential applications in both static and dynamic conditions.
NATURE COMMUNICATIONS
(2023)
Article
Cell Biology
Dongil Park, Dahye Lee, Yoonjoo Kim, Yeonhee Park, Yeon-Jae Lee, Jeong Eun Lee, Min-Kyung Yeo, Min-Woong Kang, Yooyoung Chong, Sung Joon Han, Jinwook Choi, Jong-Eun Park, Yongjun Koh, Jaehyeok Lee, YongKeun Park, Ryul Kim, Jeong Seok Lee, Jimin Choi, Sang-Hyun Lee, Bosung Ku, Da Hyun Kang, Chaeuk Chung
Summary: One major challenge of lung cancer organoids (LCOs) is that they are mostly derived from surgical specimens of early-stage lung cancer patients, which is not feasible for advanced lung cancer patients. Traditional lung biopsy techniques yield limited tissue and have low success rate for culturing LCOs. Overgrowth of normal lung cells and optimal culture conditions for LCOs are also unresolved issues.
Article
Materials Science, Multidisciplinary
Ariel J. J. Lee, Herve Hugonnet, Young Seo Kim, Joon-Goon Kim, Moosung Lee, Taeyun Ku, YongKeun Park
Summary: High-resolution label-free volumetric imaging and analysis of mouse brain tissue is achieved using 3D quantitative phase imaging, allowing direct observation of cellular and subcellular structures and quantification of subcellular organelles in different brain regions.
ADVANCED PHOTONICS RESEARCH
(2023)
Article
Physics, Multidisciplinary
Jeonghun Oh, Herve Hugonnet, YongKeun Park
Summary: An optical field is described by its amplitude and phase, which are represented in the complex plane. However, it is challenging to determine the complex field's behavior throughout the complex plane because we can only measure the amplitude on the real axis. In this study, we use the Hilbert transform to interpret quantitative phase imaging methods, revealing the behavior in the whole complex plane through analytic continuation. By employing Rouche's theorem, we prove the imaging conditions for Kramers-Kronig holographic imaging. The deviation from these conditions is examined using computational images and experimental data. This study provides insights for holographic imaging by leveraging the holomorphic characteristics of a complex optical field.
PHYSICAL REVIEW RESEARCH
(2023)
Article
Clinical Neurology
Min Young Chun, Seok Jong Chung, Su Hong Kim, Chan Wook Park, Seong Ho Jeong, Hye Sun Lee, Phil Hyu Lee, Young H. Sohn, Yong Jeong, Yun Joong Kim
Summary: We investigated the association between hippocampal perfusion changes and cognitive decline, motor deficits, and the risk of dementia conversion in Parkinson's disease patients. The results suggest that hippocampal hypoperfusion may be related to motor deficits and cognitive decline in PD patients.
ANNALS OF NEUROLOGY
(2023)
Review
Biophysics
Moosung Lee, Herve Hugonnet, Mahn Jae Lee, Youngmoon Cho, Yongkeun Park
Summary: Optical tweezers, developed from a groundbreaking work in 1970, have become an established method for noninvasive and precise manipulation of biological objects. Recent innovations, such as holographic light structuring, have enabled single-cell manipulation. The integration of holographic optical tweezers with microscopy, microfluidics, and biotechnological techniques has led to valuable advancements in single-cell studies.
BIOPHYSICS REVIEWS
(2023)
