Biomedical optics express最新文献_第3页

Structural diversity of Alzheimer-related protein aggregations revealed using photothermal ratio-metric micro-spectroscopy. 利用光热比值微光谱学揭示阿尔茨海默氏症相关蛋白质聚集的结构多样性。

IF 2.9 2区医学

Biomedical optics express Pub Date : 2024-11-11 eCollection Date: 2024-12-01 DOI: 10.1364/BOE.537461

Siming Wang, Wenhao Zhang, Pengcheng Fu, Yan Zhong, Kiryl D Piatkevich, Delong Zhang, Hyeon Jeong Lee

{"title":"Structural diversity of Alzheimer-related protein aggregations revealed using photothermal ratio-metric micro-spectroscopy.","authors":"Siming Wang, Wenhao Zhang, Pengcheng Fu, Yan Zhong, Kiryl D Piatkevich, Delong Zhang, Hyeon Jeong Lee","doi":"10.1364/BOE.537461","DOIUrl":"10.1364/BOE.537461","url":null,"abstract":"The crucial link between pathological protein aggregations and lipids in Alzheimer's disease pathogenesis is increasingly recognized, yet its spatial dynamics remain challenging for labeling-based microscopy. Here, we demonstrate photothermal ratio-metric infrared spectro-microscopy (PRISM) to investigate the in situ structural and molecular compositions of pathological features in brain tissues at submicron resolution. By identifying the vibrational spectroscopic signatures of protein secondary structures and lipids, PRISM tracks the structural dynamics of pathological proteins, including amyloid and hyperphosphorylated Tau (pTau). Amyloid-associated lipid features in major brain regions were observed, notably the enrichment of lipid-dissociated plaques in the hippocampus. Spectroscopic profiling of pTau revealed significant heterogeneity in phosphorylation levels and a distinct lipid-pTau relationship that contrasts with the anticipated lipid-plaque correlation. Beyond in vitro studies, our findings provide direct visualization evidence of aggregate-lipid interactions across the brain, offering new insights into mechanistic and therapeutic research of neurodegenerative diseases.","PeriodicalId":8969,"journal":{"name":"Biomedical optics express","volume":"15 12","pages":"6768-6782"},"PeriodicalIF":2.9,"publicationDate":"2024-11-11","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC11640567/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142827335","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":2,"RegionCategory":"医学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 0

Tissue-probe contact assessment during robotic surgery using single-fiber reflectance spectroscopy. 利用单纤维反射光谱仪评估机器人手术过程中组织与探针的接触情况。

IF 2.9 2区医学

Biomedical optics express Pub Date : 2024-11-11 eCollection Date: 2024-12-01 DOI: 10.1364/BOE.534558

Lotte M de Roode, Lisanne L de Boer, Henricus J C M Sterenborg, Theo J M Ruers

{"title":"Tissue-probe contact assessment during robotic surgery using single-fiber reflectance spectroscopy.","authors":"Lotte M de Roode, Lisanne L de Boer, Henricus J C M Sterenborg, Theo J M Ruers","doi":"10.1364/BOE.534558","DOIUrl":"10.1364/BOE.534558","url":null,"abstract":"The introduction of robotic surgery has improved minimally invasive surgery, and now robotic surgery is used in several areas of surgical oncology. Several optical techniques can be used to discriminate cancer from healthy tissue based on their optical properties. These technologies can also be employed with a small fiber-optic probe during minimally invasive surgery; however, for acquiring reliable measurements, some optical techniques require the fiber-optic probe to be in direct contact with the tissue. The lack of tactile feedback in robotic surgery makes assessing tissue-probe contact suitable for optical contact measurements challenging for the surgeon. In this study, we investigated the use of single fiber reflectance (SFR) to determine tissue-probe contact adequately. A machine learning-based algorithm was developed to classify if direct tissue-probe contact was present during the measurement in an ex-vivo tissue setup. Using this classification algorithm, an average accuracy of 93.9% was achieved for assessing probe-tissue contact, suggesting that this technique can be utilized to assess tissue-probe contact in an in vivo clinical setting.","PeriodicalId":8969,"journal":{"name":"Biomedical optics express","volume":"15 12","pages":"6756-6767"},"PeriodicalIF":2.9,"publicationDate":"2024-11-11","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC11640583/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142827340","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":2,"RegionCategory":"医学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 0

Cerebral blood flow patterns induced by photoactivation based on laser speckle contrast imaging. 基于激光斑点对比成像的光激活诱导脑血流模式。

IF 2.9 2区医学

Biomedical optics express Pub Date : 2024-11-08 eCollection Date: 2024-12-01 DOI: 10.1364/BOE.541444

Xuan Zhu, Liang Shi, Pengcheng Li, Jinling Lu

引用次数: 0

Accurate attenuation characterization in optical coherence tomography using multi-reference phantoms and deep learning.

IF 2.9 2区医学

Biomedical optics express Pub Date : 2024-11-06 eCollection Date: 2024-12-01 DOI: 10.1364/BOE.543606

Nian Peng, Chengli Xu, Yi Shen, Wu Yuan, Xiaoyu Yang, Changhai Qi, Haixia Qiu, Ying Gu, Defu Chen

{"title":"Accurate attenuation characterization in optical coherence tomography using multi-reference phantoms and deep learning.","authors":"Nian Peng, Chengli Xu, Yi Shen, Wu Yuan, Xiaoyu Yang, Changhai Qi, Haixia Qiu, Ying Gu, Defu Chen","doi":"10.1364/BOE.543606","DOIUrl":"10.1364/BOE.543606","url":null,"abstract":"The optical attenuation coefficient (AC), a crucial tissue parameter indicating the rate of light attenuation within a medium, enables quantitative analysis of tissue properties and facilitates tissue differentiation. Despite its growing clinical significance, accurate quantification of AC from optical coherence tomography (OCT) signals remains a pressing concern. This study comprehensively investigates the factors influencing the accuracy of quantitative AC extraction among existing OCT-based AC extraction algorithms. Subsequently, we propose an approach, the Multi-Reference Phantom Driven Network (MR-Net), which leverages multi-reference phantoms and deep learning to implicitly model factors affecting OCT signal propagation, thereby automatically regressing AC. Using a dataset from Intralipid and silicone-TiO2 phantoms with known AC values obtained from a collimated transmission system and imaged with a 1300 nm swept-source OCT system, we conducted a thorough comparison focusing on data length, out-of-focus distance, and reference phantoms' attenuation among existing OCT-based AC extraction algorithms. By leveraging this extensive dataset, MR-Net can automatically model the complex physical effects in the transmission process of OCT signals, significantly enhancing the accuracy of AC predictions. MR-Net outperforms other algorithms in all metrics, achieving an average relative error of only 10.43% for calculating attenuation samples, significantly lower than the lowest value of 23.72% achieved by other algorithms. This method offers a quantitative framework for disease diagnosis, ultimately contributing to more accurate and effective tissue characterization in clinical settings.","PeriodicalId":8969,"journal":{"name":"Biomedical optics express","volume":"15 12","pages":"6697-6714"},"PeriodicalIF":2.9,"publicationDate":"2024-11-06","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC11640581/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142827112","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":2,"RegionCategory":"医学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 0

BreakNet: discontinuity-resilient multi-scale transformer segmentation of retinal layers.

IF 2.9 2区医学

Biomedical optics express Pub Date : 2024-11-06 eCollection Date: 2024-12-01 DOI: 10.1364/BOE.538904

Razieh Ganjee, Bingjie Wang, Lingyun Wang, Chengcheng Zhao, José-Alain Sahel, Shaohua Pi

{"title":"BreakNet: discontinuity-resilient multi-scale transformer segmentation of retinal layers.","authors":"Razieh Ganjee, Bingjie Wang, Lingyun Wang, Chengcheng Zhao, José-Alain Sahel, Shaohua Pi","doi":"10.1364/BOE.538904","DOIUrl":"10.1364/BOE.538904","url":null,"abstract":"Visible light optical coherence tomography (vis-OCT) is gaining traction for retinal imaging due to its high resolution and functional capabilities. However, the significant absorption of hemoglobin in the visible light range leads to pronounced shadow artifacts from retinal blood vessels, posing challenges for accurate layer segmentation. In this study, we present BreakNet, a multi-scale Transformer-based segmentation model designed to address boundary discontinuities caused by these shadow artifacts. BreakNet utilizes hierarchical Transformer and convolutional blocks to extract multi-scale global and local feature maps, capturing essential contextual, textural, and edge characteristics. The model incorporates decoder blocks that expand pathways to enhance the extraction of fine details and semantic information, ensuring precise segmentation. Evaluated on rodent retinal images acquired with prototype vis-OCT, BreakNet demonstrated superior performance over state-of-the-art segmentation models, such as TCCT-BP and U-Net, even when faced with limited-quality ground truth data. Our findings indicate that BreakNet has the potential to significantly improve retinal quantification and analysis.","PeriodicalId":8969,"journal":{"name":"Biomedical optics express","volume":"15 12","pages":"6725-6738"},"PeriodicalIF":2.9,"publicationDate":"2024-11-06","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC11640562/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142827200","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":2,"RegionCategory":"医学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 0

Mesoscopic axially swept oblique plane microscope for the imaging of freely moving organisms with near-isotropic resolution. 用于自由移动生物成像的介观轴向扫描斜面显微镜，分辨率接近各向同性。

IF 2.9 2区医学

Biomedical optics express Pub Date : 2024-11-06 eCollection Date: 2024-12-01 DOI: 10.1364/BOE.537262

Samuel Davis, Jon-Richard Sommernes, Sebastian Hambura, Levin Riedel, Alejandro Gil, Aissam Ikmi, Florian Ströhl, Robert Prevedel

{"title":"Mesoscopic axially swept oblique plane microscope for the imaging of freely moving organisms with near-isotropic resolution.","authors":"Samuel Davis, Jon-Richard Sommernes, Sebastian Hambura, Levin Riedel, Alejandro Gil, Aissam Ikmi, Florian Ströhl, Robert Prevedel","doi":"10.1364/BOE.537262","DOIUrl":"10.1364/BOE.537262","url":null,"abstract":"Rapid three-dimensional imaging over extended fields of view (FOVs) is crucial to the study of organism-wide systems and biological processes in vivo. Selective-plane illumination microscopy (SPIM) is a powerful method for high spatio-temporal resolution in toto imaging of such biological specimens. However, typical SPIM implementations preclude conventional sample mounting and have anisotropic imaging performance, in particular when designed for large FOVs over 1 mm diameter. Here, we introduce axial sweeping of the illumination into a non-orthogonal dual-objective oblique plane microscope (OPM) design, thereby enabling the observation of freely moving animals over millimeter-sized FOVs, at close to isotropic, sub-cellular resolution. We apply our mesoscopic axially swept OPM (MASOPM) to image the behavioral dynamics of the sea anemone Nematostella vectensis over 1 × 0.7 × 0.4 mm at 1.7 × 2.6 × 3.7 µm resolution and 0.5 Hz volume rate.","PeriodicalId":8969,"journal":{"name":"Biomedical optics express","volume":"15 12","pages":"6715-6724"},"PeriodicalIF":2.9,"publicationDate":"2024-11-06","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC11640566/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142827320","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":2,"RegionCategory":"医学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 0

Simultaneous 2-photon and 3-photon excitation with a red fluorescent protein-cyanine dye probe pair in the 1700-nm excitation window for deep in vivo neurovascular imaging. 使用红色荧光蛋白-氰基染料探针对 1700 纳米激发窗口中的红色荧光蛋白-氰基染料探针同时进行双光子和三光子激发，用于体内神经血管深度成像。

IF 2.9 2区医学

Biomedical optics express Pub Date : 2024-11-05 eCollection Date: 2024-12-01 DOI: 10.1364/BOE.534688

Fei Xia, David Sinefeld, Zong Chang, Xiaojing Gong, Qinchao Sun

{"title":"Simultaneous 2-photon and 3-photon excitation with a red fluorescent protein-cyanine dye probe pair in the 1700-nm excitation window for deep in vivo neurovascular imaging.","authors":"Fei Xia, David Sinefeld, Zong Chang, Xiaojing Gong, Qinchao Sun","doi":"10.1364/BOE.534688","DOIUrl":"10.1364/BOE.534688","url":null,"abstract":"In vivo imaging of the neurovascular network is considered to be one of the most powerful approaches for understanding brain functionality. Nevertheless, simultaneously imaging the biological neural network and blood vessels in deep brain layers in a non-invasive manner remains to a major challenge due to the lack of appropriate labeling fluorescence probe pairs. Herein, we proposed a 2-photon and 3-photon fluorescence probe pair for neurovascular imaging. Specifically, the red fluorescence protein (RFP) with an absorption maximum of around 550 nm is used as a 3-photon excited probe to label neurons, and a cyanine derivative dye Q820@BSA has a NIR absorption maximum of 825 nm as a 2-photon excited probe to label the vasculature, enabling single wavelength excitation at 1650 nm for neurovascular imaging with high emission spectral separation (>250 nm). In particular, the 2-photon action cross-section of Q820@BSA was found to be about 2-fold larger than that of indocyanine green (ICG), a commonly used red 2-photon fluorescence labeling agent, at the same excitation wavelength. Benefiting from the long wavelength advantage in reducing scattering in both 2 and 3-photon excitation of the fluorescence pairs, we demonstrated in vivo neurovascular imaging in intact adult mouse brains through white matter and deep into the hippocampus in the somatosensory cortex.","PeriodicalId":8969,"journal":{"name":"Biomedical optics express","volume":"15 12","pages":"6670-6681"},"PeriodicalIF":2.9,"publicationDate":"2024-11-05","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC11640573/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142827330","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":2,"RegionCategory":"医学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 0

Enhancing image reconstruction in photoacoustic imaging using spatial coherence mean-to-standard-deviation factor beamforming. 利用空间相干均值-标准差因子波束成形增强光声成像中的图像重建。

IF 2.9 2区医学

Biomedical optics express Pub Date : 2024-11-05 eCollection Date: 2024-12-01 DOI: 10.1364/BOE.542710

Xinsheng Wang, Dan Wu, Yonghua Xie, Yuanyuan Bi, Yunqing Xu, Jing Zhang, Qing Luo, Huabei Jiang

{"title":"Enhancing image reconstruction in photoacoustic imaging using spatial coherence mean-to-standard-deviation factor beamforming.","authors":"Xinsheng Wang, Dan Wu, Yonghua Xie, Yuanyuan Bi, Yunqing Xu, Jing Zhang, Qing Luo, Huabei Jiang","doi":"10.1364/BOE.542710","DOIUrl":"10.1364/BOE.542710","url":null,"abstract":"In photoacoustic imaging (PAI), a delay-and-sum (DAS) beamforming reconstruction algorithm is widely used due to its ease of implementation and fast execution. However, it is plagued by issues such as high sidelobe artifacts and low contrast, that significantly hinder the ability to differentiate various structures in the reconstructed images. In this study, we propose an adaptive weighting factor called spatial coherence mean-to-standard deviation factor (scMSF) in DAS, which is extended into the spatial frequency domain. By combining scMSF with a minimum variance (MV) algorithm, the clutter level is reduced, thereby enhancing the image contrast. Quantitative results obtained from the phantom experiment demonstrate that our proposed method improves contrast ratio (CR) by 30.15 dB and signal-to-noise ratio (SNR) by 8.62 dB compared to DAS while also improving full-width at half maxima (FWHM) by 56%. From the in-vivo experiments, the scMSF-based reconstruction image exhibits a higher generalized contrast-to-noise ratio (gCNR), indicating improved target detectability with a 25.6% enhancement over DAS and a 22.5% improvement over MV.","PeriodicalId":8969,"journal":{"name":"Biomedical optics express","volume":"15 12","pages":"6682-6696"},"PeriodicalIF":2.9,"publicationDate":"2024-11-05","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC11640575/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142827281","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":2,"RegionCategory":"医学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 0

Photothermal optical coherence microscopy for studying lipid architecture in human carotid arteries. 用于研究人体颈动脉脂质结构的光热光学相干显微镜。

IF 2.9 2区医学

Biomedical optics express Pub Date : 2024-11-04 eCollection Date: 2024-12-01 DOI: 10.1364/BOE.534800

Aaron Doug Deen, Antonio López-Marín, Jonas J M Riksen, Antonius F W van der Steen, Gijs van Soest

引用次数: 0

Super resolution reconstruction of fluorescence microscopy images by a convolutional network with physical priors. 利用具有物理先验的卷积网络对荧光显微镜图像进行超分辨率重建。

IF 2.9 2区医学

Biomedical optics express Pub Date : 2024-11-01 DOI: 10.1364/BOE.537589

Qiangyu Cai, Jun Lu, Wenting Gu, Di Xiao, Boyi Li, Lei Xu, Yuanjie Gu, Biqin Dong, Xin Liu

{"title":"Super resolution reconstruction of fluorescence microscopy images by a convolutional network with physical priors.","authors":"Qiangyu Cai, Jun Lu, Wenting Gu, Di Xiao, Boyi Li, Lei Xu, Yuanjie Gu, Biqin Dong, Xin Liu","doi":"10.1364/BOE.537589","DOIUrl":"10.1364/BOE.537589","url":null,"abstract":"Super-solution fluorescence microscopy, such as single-molecule localization microscopy (SMLM), is effective in observing subcellular structures and achieving excellent enhancement in spatial resolution in contrast to traditional fluorescence microscopy. Recently, deep learning has demonstrated excellent performance in SMLM in solving the trade-offs between spatiotemporal resolution, phototoxicity, and signal intensity. However, most of these researches rely on sufficient and high-quality datasets. Here, we propose a physical priors-based convolutional super-resolution network (PCSR), which incorporates a physical-based loss term and an initial optimization process based on the Wiener filter to create excellent super-resolution images directly using low-resolution images. The experimental results demonstrate that PCSR enables the achievement of a fast reconstruction time of 100 ms and a high spatial resolution of 10 nm by training on a limited dataset, allowing subcellular research with high spatiotemporal resolution, low cell phototoxic illumination, and high accessibility. In addition, the generalizability of PCSR to different live cell structures makes it a practical instrument for diverse cell research.","PeriodicalId":8969,"journal":{"name":"Biomedical optics express","volume":"15 11","pages":"6638-6653"},"PeriodicalIF":2.9,"publicationDate":"2024-11-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC11563314/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142646994","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":2,"RegionCategory":"医学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 0