Quantifying the influence of optical coherence tomography beam tilt in the normal adult mouse retina

Parallel microstructures within the retina – like retinal nerve fiber layer (RNFL) axons – differentially reflect light depending on its angle. This effect has previously been observed with optical coherence tomography (OCT), but it is under-studied. Quantification of this effect might provide useful information about retinal microstructures, and therefore the broader health of the retina. Our goal was to quantify the influence OCT beam tilt on reflectivity of each layer of the normal adult mouse retina., Using a Bioptigen Envisu UHR2200 system, we collected OCT images of twenty-seven healthy control mouse retinas (from fifteen mice). Images included the optic nerve head, the temporal retina, and the nasal retina. We converted signal intensities to estimated attenuation coefficients (eAC) for further processing. Each retina was imaged multiple times with various beam tilts. eAC was measured at beam tilts in the range of ±30° (where 0° would be the most standard acquisition, where the beam is perpendicular to the surface of the retina). Images had a nominal resolution of 1.4 µm × 1.4 µm. Retinas were digitally linearized and spatially normalized to facilitate averaging and data aggregation across mice. This repository includes all retinal images processed for the associated publication. For three of the retinas, we also provide R code (r-project.org) and images from intermediate processing steps., , # Quantifying the influence of optical coherence tomography beam tilt in the normal adult mouse retina. [https://doi.org/10.5061/dryad.95x69p8th](https://doi.org/10.5061/dryad.95x69p8th) ## Description of the data and file structure In optical coherence tomography (OCT), the angle of the beam influences the apparent reflectivity of the retina. The relationship between beam tilt and reflectivity has been characterized in some layers of the mouse retina. We sought to characterize that relationship for all layers of the retina. To this end, we collected multiple OCT images at varying beam tilts from fifteen (15) adult wild-type C57 mice (Jackson Labs, Bar Harbor, ME, age ~3 mo). References: Meleppat RK, Zhang P, Ju MJ, Manna SK, Jian Y, Pugh EN, Zawadzki RJ, 2019. Directional optical coherence tomography reveals melanin concentration-dependent scattering properties of retinal pigment epithelium. J Biomed Opt 24(6):1-10. ### Files and variables #### File: beam\_tilt\_data\_for\_Dryad...视网膜内的平行微结构——比如视网膜神经纤维层（retinal nerve fiber layer, RNFL）轴突——会根据入射光的角度差异化反射光线。这种效应此前已在光学相干断层扫描（optical coherence tomography, OCT）中被观测到，但相关研究仍较为匮乏。对该效应的定量分析，或可为视网膜微结构乃至整体视网膜健康状况提供有价值的信息。本研究旨在定量分析光学相干断层扫描光束倾斜对正常成年小鼠视网膜各层反射特性的影响。 本研究采用Bioptigen Envisu UHR2200系统，采集了来自15只小鼠的27例健康对照小鼠视网膜的光学相干断层扫描图像。采集的图像涵盖视神经乳头、颞侧视网膜及鼻侧视网膜区域。我们将图像信号强度转换为估算衰减系数（estimated attenuation coefficients, eAC）以用于后续处理。 每例视网膜均通过不同的光束倾斜角度多次成像。我们在±30°的光束倾斜范围内测量了eAC值（0°为最标准的采集模式，此时光束与视网膜表面垂直）。图像的标称分辨率为1.4 μm × 1.4 μm。我们对视网膜图像进行了数字化线性校正与空间归一化处理，以便于跨小鼠样本的平均化与数据聚合。本数据集仓库包含了为相关学术出版物处理的全部视网膜图像。其中3例视网膜的相关数据还附带了R代码（r-project.org）及中间处理步骤的图像。 # 定量分析光学相干断层扫描光束倾斜对正常成年小鼠视网膜的影响 [https://doi.org/10.5061/dryad.95x69p8th](https://doi.org/10.5061/dryad.95x69p8th) ## 数据与文件结构说明 在光学相干断层扫描（OCT）中，光束角度会影响视网膜的表观反射特性。目前已有研究对小鼠视网膜部分层的光束倾斜与反射特性之间的关系进行了表征，但本研究旨在全面表征视网膜所有层的该类关系。为此，我们从15只成年野生型C57小鼠（购自缅因州巴港镇杰克逊实验室，年龄约3个月）身上采集了不同光束倾斜角度下的多组光学相干断层扫描图像。 ### 参考文献 Meleppat RK, Zhang P, Ju MJ, Manna SK, Jian Y, Pugh EN, Zawadzki RJ, 2019. Directional optical coherence tomography reveals melanin concentration-dependent scattering properties of retinal pigment epithelium. J Biomed Opt 24(6):1-10. ### 文件与变量说明 #### 文件：beam_tilt_data_for_Dryad...