Biomedical optics express最新文献_第5页

Stimulated Brillouin scattering flow cytometry. 受激布里渊散射流式细胞仪。

IF 2.9 2区医学

Biomedical optics express Pub Date : 2024-09-25 eCollection Date: 2024-10-01 DOI: 10.1364/BOE.537602

Jake R Rosvold, Giulia Zanini, Chenchen Handler, Eric Frank, Jiarui Li, Michele I Vitolo, Stuart S Martin, Giuliano Scarcelli

引用次数: 0

OCTA-ReVA: an open-source toolbox for comprehensive retinal vessel feature analysis in optical coherence tomography angiography. OCTA-ReVA：用于光学相干断层血管造影中视网膜血管特征综合分析的开源工具箱。

IF 2.9 2区医学

Biomedical optics express Pub Date : 2024-09-25 eCollection Date: 2024-10-01 DOI: 10.1364/BOE.537727

Albert K Dadzie, David Le, Mansour Abtahi, Behrouz Ebrahimi, Tobiloba Adejumo, Taeyoon Son, Michael J Heiferman, Jennifer I Lim, Xincheng Yao

{"title":"OCTA-ReVA: an open-source toolbox for comprehensive retinal vessel feature analysis in optical coherence tomography angiography.","authors":"Albert K Dadzie, David Le, Mansour Abtahi, Behrouz Ebrahimi, Tobiloba Adejumo, Taeyoon Son, Michael J Heiferman, Jennifer I Lim, Xincheng Yao","doi":"10.1364/BOE.537727","DOIUrl":"https://doi.org/10.1364/BOE.537727","url":null,"abstract":"Optical coherence tomography angiography (OCTA) has significantly advanced the study and diagnosis of eye diseases. However, current clinical OCTA systems and software tools lack comprehensive quantitative analysis capabilities, limiting their full clinical utility. This paper introduces the OCTA Retinal Vessel Analyzer (OCTA-ReVA), a versatile open-source platform featuring a user-friendly graphical interface designed for the automated extraction and quantitative analysis of OCTA features. OCTA-ReVA includes traditional established OCTA features based on binary vascular image processing, such as blood vessel density (BVD), foveal avascular zone area (FAZ-A), blood vessel tortuosity (BVT), and blood vessel caliber (BVC). Additionally, it introduces new features based on blood perfusion intensity processing, such as perfusion intensity density (PID), vessel area flux (VAF), and normalized blood flow index (NBFI), which provide deeper insights into retinal perfusion conditions. These additional capabilities are crucial for the early detection and monitoring of retinal diseases. OCTA-ReVA demystifies the intricate task of retinal vasculature quantification, offering a robust tool for researchers and clinicians to objectively evaluate eye diseases and enhance the precision of retinal health assessments.","PeriodicalId":8969,"journal":{"name":"Biomedical optics express","volume":"15 10","pages":"6010-6023"},"PeriodicalIF":2.9,"publicationDate":"2024-09-25","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC11482184/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142457271","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

Single-shot quantitative phase microscopy: a multi-functional tool for cell analysis. 单次定量相显微镜：细胞分析的多功能工具。

IF 2.9 2区医学

Biomedical optics express Pub Date : 2024-09-24 eCollection Date: 2024-10-01 DOI: 10.1364/BOE.533091

Ana Espinosa-Momox, Brandon Norton, Maria Cywinska, Bryce Evans, Juan Vivero-Escoto, Rosario Porras-Aguilar

引用次数: 0

Development of a carboxymethyl chitosan functionalized slide for small molecule detection using oblique-incidence reflectivity difference technology. 利用斜入射反射率差技术开发用于小分子检测的羧甲基壳聚糖功能化载玻片。

IF 2.9 2区医学

Biomedical optics express Pub Date : 2024-09-19 eCollection Date: 2024-10-01 DOI: 10.1364/BOE.534563

Mengjing Xu, Boyang Shi, Haofeng Li, Xiaohan Mai, Lan Mi, Jiong Ma, Xiangdong Zhu, Guowei Wang, Yiyan Fei

{"title":"Development of a carboxymethyl chitosan functionalized slide for small molecule detection using oblique-incidence reflectivity difference technology.","authors":"Mengjing Xu, Boyang Shi, Haofeng Li, Xiaohan Mai, Lan Mi, Jiong Ma, Xiangdong Zhu, Guowei Wang, Yiyan Fei","doi":"10.1364/BOE.534563","DOIUrl":"https://doi.org/10.1364/BOE.534563","url":null,"abstract":"Label-free optical biosensors have become powerful tools in the study of biomolecular interactions without the need for labels. High throughput and low detection limit are desirable for rapid and accurate biomolecule detection. The oblique-incidence reflectivity difference (OI-RD) technique is capable of detecting thousands of biomolecular interactions in a high-throughput mode, specifically for biomolecules larger than 1000 Da. In order to enhance the detection capability of OI-RD for small molecules (typically < 500 Da), we have developed a three-dimensional biochip that utilized carboxymethyl chitosan (CMCS) functionalized slides. By investigating various factors such as sonication time, protein immobilization time, CMCS molecular weight, and glutaraldehyde (GA) functionalization time, we have achieved a detection limit of 6.8 pM for avidin (68 kDa). Furthermore, accurate detection of D-biotin with a molecular weight of 244 Da has also been achieved. This paper presents an effective solution for achieving both high throughput and low detection limits using the OI-RD technique in the field of biomolecular interaction detection.","PeriodicalId":8969,"journal":{"name":"Biomedical optics express","volume":"15 10","pages":"5947-5959"},"PeriodicalIF":2.9,"publicationDate":"2024-09-19","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC11482164/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142457247","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

DMD and microlens array as a switchable module for illumination angle scanning in optical diffraction tomography. 将 DMD 和微透镜阵列作为光学衍射断层扫描中照明角扫描的可切换模块。

IF 2.9 2区医学

Biomedical optics express Pub Date : 2024-09-18 eCollection Date: 2024-10-01 DOI: 10.1364/BOE.535123

Siqi Yang, Jeongsoo Kim, Mary E Swartz, Johann K Eberhart, Shwetadwip Chowdhury

{"title":"DMD and microlens array as a switchable module for illumination angle scanning in optical diffraction tomography.","authors":"Siqi Yang, Jeongsoo Kim, Mary E Swartz, Johann K Eberhart, Shwetadwip Chowdhury","doi":"10.1364/BOE.535123","DOIUrl":"10.1364/BOE.535123","url":null,"abstract":"Optical diffraction tomography (ODT) enables label-free and morphological 3D imaging of biological samples using refractive-index (RI) contrast. To accomplish this, ODT systems typically capture multiple angular-specific scattering measurements, which are used to computationally reconstruct a sample's 3D RI. Standard ODT systems employ scanning mirrors to generate angular illuminations. However, scanning mirrors are limited to illuminating the sample from only one angle at a time. Furthermore, when operated at high speeds, these mirrors may exhibit mechanical instabilities that compromise image quality and measurement speed. Recently, newer ODT systems have been introduced that utilize digital-micromirror devices (DMD), spatial light modulators (SLMs), or LED arrays to achieve switchable angle-scanning with no physically-scanning components. However, these systems associate with power inefficiencies and/or spurious diffraction orders that can also limit imaging performance. In this work, we developed a novel non-interferometric ODT system that utilizes a fully switchable module for angle scanning composed of a DMD and microlens array (MLA). Compared to other switchable ODT systems, this module enables each illumination angle to be generated fully independently from every other illumination angle (i.e., no spurious diffraction orders) while also optimizing the power efficiency based on the required density of illumination angles. We validate the quantitative imaging capability of this system using calibration microspheres. We also demonstrate its capability for imaging multiple-scattering samples by imaging an early-stage zebrafish embryo.","PeriodicalId":8969,"journal":{"name":"Biomedical optics express","volume":"15 10","pages":"5932-5946"},"PeriodicalIF":2.9,"publicationDate":"2024-09-18","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC11482169/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142457248","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

Investigating the effect of limited spectral information on NIRS-derived changes in hemoglobin and cytochrome-c-oxidase concentration with a diffusion-based model. 利用基于扩散的模型研究有限光谱信息对近红外光谱衍生的血红蛋白和细胞色素-c-氧化酶浓度变化的影响。

IF 2.9 2区医学

Biomedical optics express Pub Date : 2024-09-17 eCollection Date: 2024-10-01 DOI: 10.1364/BOE.531775

Georgina Leadley, Robert J Cooper, Topun Austin, Jeremy C Hebden, Gemma Bale

{"title":"Investigating the effect of limited spectral information on NIRS-derived changes in hemoglobin and cytochrome-c-oxidase concentration with a diffusion-based model.","authors":"Georgina Leadley, Robert J Cooper, Topun Austin, Jeremy C Hebden, Gemma Bale","doi":"10.1364/BOE.531775","DOIUrl":"https://doi.org/10.1364/BOE.531775","url":null,"abstract":"This paper investigates the theoretical capability of near-infrared spectroscopy (NIRS) systems to accurately measure changes in the oxidation state of cerebral cytochrome-c-oxidase (CCO) alongside the hemoglobins, for a deeper understanding of NIRS limitations. Concentration changes of oxy and deoxyhemoglobin (HbO and HbR) indicate the oxygen status of blood vessels and correlate with several other physiological parameters across different pathologies. The oxidation state of CCO indicates cellular energy usage efficiency through oxidative metabolism, potentially serving as a biomarker for brain and other tissue disorders. This study employs an analytical model based on the diffusion equation and statistical analyses to explore the dependency of estimated concentration changes on various systematic parameters, such as choice of wavelengths, spectral bandwidth, and uncertainties in extinction coefficient (ε) and differential pathlength factor (DPF). When there is a 10% uncertainty in DPF and ε, errors were found to be highly dependent on the number of discrete wavelengths, but not on their bandwidth if appropriate considerations are taken to account for it.","PeriodicalId":8969,"journal":{"name":"Biomedical optics express","volume":"15 10","pages":"5912-5931"},"PeriodicalIF":2.9,"publicationDate":"2024-09-17","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC11482185/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142457258","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

Age dependence of the average refractive index of the isolated human crystalline lens. 离体人类晶状体平均折射率的年龄依赖性。

IF 2.9 2区医学

Biomedical optics express Pub Date : 2024-09-17 eCollection Date: 2024-10-01 DOI: 10.1364/BOE.536501

Ramya Natarajan, Bianca Maceo Heilman, Marco Ruggeri, Arthur Ho, Vivek M Singh, Robert Augusteyn, Jean-Marie Parel, Pravin K Vaddavalli, Fabrice Manns

引用次数: 0

Fluorescence super-resolution microscopy via fluctuation-based multi-route synergy. 通过基于波动的多路协同技术实现荧光超分辨率显微镜。

IF 2.9 2区医学

Biomedical optics express Pub Date : 2024-09-16 eCollection Date: 2024-10-01 DOI: 10.1364/BOE.534067

Zhiping Zeng, Biqing Xu, Jin Qiu, Xinyi Chen, Yantang Huang, Canhua Xu

引用次数: 0

TDT-MIL: a framework with a dual-channel spatial positional encoder for weakly-supervised whole slide image classification. TDT-MIL：双通道空间位置编码器弱监督整张幻灯片图像分类框架。

IF 2.9 2区医学

Biomedical optics express Pub Date : 2024-09-13 eCollection Date: 2024-10-01 DOI: 10.1364/BOE.530534

Hongbin Zhang, Ya Feng, Jin Zhang, Guangli Li, Jianguo Wu, Donghong Ji

{"title":"TDT-MIL: a framework with a dual-channel spatial positional encoder for weakly-supervised whole slide image classification.","authors":"Hongbin Zhang, Ya Feng, Jin Zhang, Guangli Li, Jianguo Wu, Donghong Ji","doi":"10.1364/BOE.530534","DOIUrl":"https://doi.org/10.1364/BOE.530534","url":null,"abstract":"The classic multiple instance learning (MIL) paradigm is harnessed for weakly-supervised whole slide image (WSI) classification. The spatial position relationship located between positive tissues is crucial for this task due to the small percentage of these tissues in billions of pixels, which has been overlooked by most studies. Therefore, we propose a framework called TDT-MIL. We first serially connect a convolutional neural network and transformer for basic feature extraction. Then, a novel dual-channel spatial positional encoder (DCSPE) module is designed to simultaneously capture the complementary local and global positional information between instances. To further supplement the spatial position relationship, we construct a convolutional triple-attention (CTA) module to attend to the inter-channel information. Thus, the spatial positional and inter-channel information is fully mined by our model to characterize the key pathological semantics in WSI. We evaluated TDT-MIL on two publicly available datasets, including CAMELYON16 and TCGA-NSCLC, with the corresponding classification accuracy and AUC up to 91.54%, 94.96%, and 90.21%, 94.36%, respectively, outperforming state-of-the-art baselines. More importantly, our model possesses a satisfactory capability in solving the imbalanced WSI classification task using an ingenious but interpretable structure.","PeriodicalId":8969,"journal":{"name":"Biomedical optics express","volume":"15 10","pages":"5831-5855"},"PeriodicalIF":2.9,"publicationDate":"2024-09-13","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC11482175/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142457277","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

Chirp excitation for natural frequency optical coherence elastography 用于固有频率光学相干弹性成像的啁啾激励

IF 3.4 2区医学

Biomedical optics express Pub Date : 2024-09-09 DOI: 10.1364/boe.536685

Chengjin Song, Weichao He, Pengfei Song, Jinping Feng, Yanping Huang, Jingjiang Xu, Lin An, Jia Qin, Kai Gao, Michael D. Twa, Gongpu Lan

{"title":"Chirp excitation for natural frequency optical coherence elastography","authors":"Chengjin Song, Weichao He, Pengfei Song, Jinping Feng, Yanping Huang, Jingjiang Xu, Lin An, Jia Qin, Kai Gao, Michael D. Twa, Gongpu Lan","doi":"10.1364/boe.536685","DOIUrl":"https://doi.org/10.1364/boe.536685","url":null,"abstract":"Optical coherence elastography (OCE) has recently been used to characterize the natural frequencies of delicate tissues (e.g., the in vivo human cornea) with sub-micron tissue oscillation magnitudes. Here, we investigate broadband spectrum sample stimulation using a contact-based piezoelectric transducer (PZT) chirp excitation and compare its performance with a non-contact, air-pulse excitation for OCE measurements on 1.0-7.5% agar phantoms and an ex vivo porcine cornea under intraocular pressures (IOPs) of 5-40 mmHg. The 3-ms duration air-pulse generated a ∼0–840 Hz excitation spectrum, effectively quantifying the first-order natural frequencies in softer samples (e.g., 1.0%–4.0% agar: 239–782 Hz, 198 Hz/%; porcine cornea: 68–414 Hz, 18 Hz/mmHg, IOP: 5–25 mmHg), but displayed limitations in measuring natural frequencies for stiffer samples (e.g., 4.5%–7.5% agar, porcine cornea: IOP ≥ 30 mmHg) or higher order natural frequency components. In contrast, the chirp excitation produced a much wider spectrum (e.g., 0–5000 Hz), enabling the quantification of both first-order natural frequencies (1.0%–7.5% agar: 253–1429 Hz, 181 Hz/%; porcine cornea: 76–1240 Hz, 32 Hz/mmHg, IOP: 5–40 mmHg) and higher order natural frequencies. A modified Bland-Altman analysis (mean versus relative difference in natural frequency) showed a bias of 20.4%, attributed to the additional mass and frequency introduced by the contact nature of the PZT probe. These findings, especially the advantages and limitations of both excitation methods, can be utilized to validate the potential application of natural frequency OCE, paving the way for the ongoing development of biomechanical characterization methods utilizing sub-micron tissue oscillation features.","PeriodicalId":8969,"journal":{"name":"Biomedical optics express","volume":"19 1","pages":""},"PeriodicalIF":3.4,"publicationDate":"2024-09-09","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142247587","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":2,"RegionCategory":"医学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 0