A Fully Automatic System For Verified Computerized Stereoanalysis

用于验证计算机立体分析的全自动系统

• 批准号: 8143297
• 负责人: PETER Randolph MOUTON
• 金额: $ 13.28万
• 依托单位: STEREOLOGY RESOURCE CENTER, INC.
• 依托单位国家: 美国
• 财政年份: 2003
• 资助国家: 美国
• 起止时间: 2003-07-10 至 2013-08-31
• 项目状态: 已结题
• 来源: https://reporter.nih.gov/project-details/8143297
• 关键词: Active Learning; Address; Algorithms; Area; Biological; Biological Process; Biomedical Research; Blood capillaries; Cell Volumes; Classification; Color; Communities; Computer software; Computer-Assisted Image Analysis; Computers; Databases; Detection; Development; Disease; Doctor of Philosophy; Educational workshop; Engineering; Florida; Funding; Glass; Goals; Gold; Grant; Growth; Health; Histology; Human; Human Resources; Image; Institution; International; Length; Libraries; Longevity; Machine Learning; Manuals; Marketing; Measurement; Methodology; Methods; Microscopic; Microscopy; Noise; Performance; Phase; Probability; Research; Research Project Grants; Resources; Sales; Sampling; Savings; Scientist; Shapes; Signal Transduction; Slide; Small Business Innovation Research Grant; Solid; Staining method; Stains; Structure; Surface; System; Technology; Testing; Texture; Therapeutic; Time; Tissue Stains; Tissues; Training; United States National Institutes of Health; Universities; Update; Vendor; Work; animal tissue; base; capillary; commercialization; computer program; computerized; cost; digital imaging; high throughput analysis; human disease; human tissue; improved; innovation; interest; novel strategies; novel therapeutic intervention; phase 1 study; programs; public health relevance; validation studies

DESCRIPTION (provided by applicant): A Fully Automatic System For Verified Computerized Stereoanalysis SUMMARY The requirement for a trained user to interact with tissue and images is a long-standing impediment to higher throughput analysis of biological microstructures using unbiased stereology, the state-of-the-art method for accurate quantification of biological structure. Phase 1 studies addressed this limitation with Verified Computerized Stereoanalysis (VCS), an innovative approach for automatic stereological analysis that improves throughput efficiency by 6-9 fold compared to conventional computerized stereology. Work in Phase 2 integrated VCS into the Stereologer", an integrated hardware-software-microscopy system for stereological analysis of tissue sections and stored images. Validation studies of first-order stereological parameters. i.e., volume, surface area, length, number, confirmed that the color-based detection methods in the VCS approach achieve accurate results for automatic stereological analysis of high S:N biological microstructures. These studies indicate that fully automatic stereological analysis of tissue sections and stored images can be realized by elimination of two remaining barriers, which will be addressed in this Phase II Continuation Competing Renewal. In Aim 1, applications for feature extraction and microstructure classification, developed in part with funding from the Office of Naval Research, will be integrated into the VCS program. The new application (VCS II) will use these approaches to automatically detect and classify polymorphic microstructures of biological interest using a range of feature calculations, including size, color, border, shape, and texture, with support from active learning and Support Vector Machines. Work in Aim 2 will eliminate physical handling of glass slides during computerized stereology studies by equipping the Stereologer system with automatic slide loading/unloading technology controlled by the Stereologer system. This technology will approximately double the throughput efficiency of the current VCS program and support "human-in-the-loop" interaction for sample microstructures on the border between two or more adjacent classes. The studies in Aim 3 will rigorously test the hypothesis that fully automatic VCS can quantify first- and second-order stereological parameters, without a loss of accuracy compared to the current gold-standard - non-automatic computerized stereology, e.g., manual Stereologer. If these studies validate the accuracy of VCS II, then commercialization of the fully automatic program will facilitate the throughout efficiency for testing scientific hypotheses in a wide variety of biomedical research projects; reduce labor costs for computerized stereology studies; hasten the growth of our understanding of biological processes that underlie health, longevity, and disease; and accelerate the development of novel approaches for the therapeutic management of human disease. Solid evidence that the SRC and its strategic partners can effectively commercialize this technology is demonstrated by their worldwide sales and support of the Stereologer system for the past 13 years. Key personnel and participating institutions: 7 Peter R. Mouton, Ph.D. (PI), Stereology Resource Center, Chester, MD. 7 Dmitry Goldgof, Ph.D., University of South Florida Coll. Engineering, Tampa, Fl. 7 Larry Hall, Ph.D., University of South Florida Coll. Engineering, Tampa, Fl. 7 Joel Durgavich, MS, Systems Planning and Analysis, Alexandria, VA. 7 Kurt Kramer, MS, Computer Programmer, University of South Florida, Coll. Engineering, Tampa, Fl. 7 Michael E. Calhoun, Ph.D., Sinq Systems, Columbia, MD PUBLIC HEALTH RELEVANCE: Many fields of scientific research require a trained expert to make tedious and repetitive measurements of microscopic changes in animal and human tissues. This project will produce a computer program that performs these measurements with equal accuracy to a trained expert, but with dramatic savings in time and costs. Allowing scientists to complete more research in less time will accelerate our understanding of the factors that promote health and longevity, and hasten progress toward the development of new treatments for human diseases.

描述(由申请人提供)：一种用于验证计算机化立体分析的全自动系统概述对受过训练的用户与组织和图像交互的要求是使用无偏体视学对生物微结构进行更高吞吐量分析的长期障碍，无偏体视学是精确量化生物结构的最新方法。第一阶段研究通过验证的计算机化立体分析(VCS)解决了这一限制，这是一种自动立体分析的创新方法，与传统的计算机化立体分析相比，其吞吐量效率提高了6-9倍。第二阶段的工作将VCS集成到立体记录仪中，这是一个集成的硬件-软件-显微系统，用于组织切片和存储的图像的立体分析。一阶体视学参数的验证研究。即体积、表面积、长度、个数，证实了VCS方法中的基于颜色的检测方法对于高S：N生物微结构的自动体视学分析取得了准确的结果。这些研究表明，通过消除剩余的两个障碍，可以实现组织切片和存储图像的全自动体视学分析，这两个障碍将在第二阶段继续竞争更新中得到解决。在目标1中，部分由海军研究办公室资助开发的特征提取和微结构分类应用程序将被整合到VCS计划中。新的应用程序(VCS II)将使用这些方法，在主动学习和支持向量机的支持下，使用一系列特征计算，包括大小、颜色、边界、形状和纹理，自动检测和分类生物感兴趣的多态微结构。目标2的工作将通过为立体记录仪系统配备由立体记录仪系统控制的自动载玻片装载/卸载技术，消除在计算机立体研究期间对玻璃载物片的物理处理。这项技术将使当前VCS计划的吞吐效率提高近一倍，并支持在两个或更多相邻类之间的边界上对样品微结构进行“人在回路”交互。目标3中的研究将严格检验这样的假设，即全自动VCS可以量化一阶和二阶体视学参数，而与目前的金标准非自动计算机体视学相比，例如手动体视仪，不会损失精度。如果这些研究验证了VCS II的准确性，那么全自动程序的商业化将有助于在各种生物医学研究项目中测试科学假设的全程效率；降低计算机化体视学研究的劳动力成本；加速我们对构成健康、长寿和疾病基础的生物过程的理解；并加速开发用于人类疾病治疗管理的新方法。SRC及其战略合作伙伴能够有效地将这项技术商业化的确凿证据体现在他们过去13年来在全球范围内对立体声系统的销售和支持。主要人员和参与机构：7Peter R.Mouton，博士(PI)，马里兰州切斯特市立体学资源中心。7 Dmitry Goldgof，博士，南佛罗里达大学学院。工程，佛罗里达州坦帕市7拉里·霍尔，南佛罗里达大学学院博士。工程，佛罗里达州坦帕市7乔尔·杜尔加维奇，系统规划和分析硕士，弗吉尼亚州亚历山大市。7库尔特·克莱默，硕士，科罗拉多州南佛罗里达大学计算机程序员。工程，佛罗里达州坦帕市迈克尔·E·卡尔霍恩，博士，马里兰州哥伦比亚市SINQ系统公司 与公共卫生相关：许多科学研究领域需要训练有素的专家对动物和人类组织的微观变化进行乏味和重复的测量。这个项目将产生一个计算机程序，它可以与训练有素的专家一样准确地执行这些测量，但大大节省了时间和成本。允许科学家在更短的时间内完成更多的研究，将加快我们对促进健康和长寿因素的理解，并加快人类疾病新疗法的开发。

项目成果

Unbiased estimation of cell number using the automatic optical fractionator.

• DOI: 10.1016/j.jchemneu.2016.12.002
• 发表时间: 2017-03
• 期刊: Journal of chemical neuroanatomy
• 影响因子: 2.8
• 作者: Mouton PR;Phoulady HA;Goldgof D;Hall LO;Gordon M;Morgan D
• 通讯作者: Morgan D

Automatic section thickness determination using an absolute gradient focus function.

• DOI: 10.1111/j.1365-2818.2012.03669.x
• 发表时间: 2012-12
• 期刊: Journal of microscopy
• 影响因子: 2
• 作者: Elozory DT;Kramer KA;Chaudhuri B;Bonam OP;Goldgof DB;Hall LO;Mouton PR
• 通讯作者: Mouton PR

Caloric restriction attenuates amyloid deposition in middle-aged dtg APP/PS1 mice.

• DOI: 10.1016/j.neulet.2009.08.038
• 发表时间: 2009-10-30
• 期刊: Neuroscience letters
• 影响因子: 2.5
• 作者: Mouton PR;Chachich ME;Quigley C;Spangler E;Ingram DK
• 通讯作者: Ingram DK

The effects of age and lipopolysaccharide (LPS)-mediated peripheral inflammation on numbers of central catecholaminergic neurons.

• DOI: 10.1016/j.neurobiolaging.2010.09.025
• 发表时间: 2012-02
• 期刊: Neurobiology of aging
• 影响因子: 4.2
• 作者: Mouton PR;Kelley-Bell B;Tweedie D;Spangler EL;Perez E;Carlson OD;Short RG;deCabo R;Chang J;Ingram DK;Li Y;Greig NH
• 通讯作者: Greig NH