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Stromal Filters in Automated Immunostain Scoring 间质过滤器在自动免疫染色评分中的应用
Pub Date : 2014-12-30 DOI: 10.1155/2014/497426
Kunal Patel, A. Bui, G. Riedlinger, Y. Yagi
KI-67 is a marker for cell proliferation which binds a nuclear antigen and is thus a prime antibody in immunohistochemistry. Scoring methodologies derived from KI-67 immunostaining have shown promise as predictors of lethality in a range of cancers [1]. The most common scoring method is the labelling index, a ratio of KI-67 positive cells to the entire population [1]. Manual calculation of a labelling index can be a time-consuming process for pathologists, who count cells in a bright field. Automated scoring algorithms and programs have been written to generate labelling indices, but they are nonspecific with respect to cell type and most often skew results by including stromal cells in the index. This problem is particularly relevant in breast cancer, where tumors are often located in a field of fibroadipose tissue. We have adapted algorithms for immunostain scoring and tested 2 stromal cell filtration algorithms which remove these cells based on their elongated nuclear morphology.
KI-67是细胞增殖的标志物,它与核抗原结合,因此是免疫组织化学中的主要抗体。KI-67免疫染色的评分方法已显示出作为一系列癌症致死率预测指标的前景[1]。最常见的评分方法是标记指数,即KI-67阳性细胞与总体的比例[1]。对于病理学家来说,手动计算标记指数可能是一个耗时的过程,他们在明亮的视野中计数细胞。已经编写了自动评分算法和程序来生成标记索引,但它们对于细胞类型是非特异性的,并且通常通过在索引中包含基质细胞来扭曲结果。这个问题与乳腺癌尤其相关,因为乳腺癌的肿瘤通常位于纤维脂肪组织区。我们已经适应了免疫染色评分的算法,并测试了2种基质细胞过滤算法,这些算法根据细胞的细长核形态去除这些细胞。
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引用次数: 2
An Editors Perspective on Digital Pathology 编辑对数字病理学的看法
Pub Date : 2014-12-29 DOI: 10.1155/2014/565437
Stanley Cohen
There is currently a major disconnection in the publishing universe not only for retention, transmission, and analysis of digital images in pathology but also for new and emerging computationally intensive imaging methodologies. Many authors gravitate towards engineering journals, which are not usually read by pathologists or, for that matter, most biomedical investigators. The pathobiological application shown is often a proof-of-concept rather than a sophisticated investigative study. Papers that appear in pathology journals have the opposite problem; they are sketchy about the physical/engineering side of the work and do not attract many readers from the engineering and physics community. Nature methods partially bridge this gap, but it is more about the technology than the application of this technology for novel scientific discovery. For this reason, there is a need for a journal that can attract both kinds of authors (and readers) and serve as an integrative focus for work in these fields. Our evolving work towards this goal will be discussed.
目前,出版领域不仅存在病理学数字图像的保留、传输和分析方面的脱节,而且存在新兴的计算密集型成像方法的脱节。许多作者倾向于工程学期刊,而这些期刊通常不会被病理学家或大多数生物医学研究人员阅读。所显示的病理生物学应用通常是概念验证,而不是复杂的调查性研究。发表在病理学期刊上的论文则有相反的问题;他们对工作的物理/工程方面很粗略,并没有吸引很多来自工程和物理社区的读者。自然方法部分地弥补了这一差距,但它更多的是关于技术,而不是将这项技术应用于新的科学发现。出于这个原因,需要一种能够吸引这两种作者(和读者)的期刊,并作为这些领域工作的综合焦点。我们将讨论为实现这一目标而开展的工作。
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引用次数: 0
Scalable Adaptive Graphics Environment: A Novel Way to View and Manipulate Whole-Slide Images 可伸缩的自适应图形环境:一种查看和操作整张幻灯片图像的新方法
Pub Date : 2014-12-29 DOI: 10.1155/2014/517953
V. Mateevitsi, B. Levy
The Scalable Adaptive Graphics Environment (SAGE) was developed at theUniversity of Illinois at Chicago’s (UIC) Electronic Visualization Laboratory (EVL) to facilitate collaborative efforts that require the sharing of data-intensive information for analysis. SAGE is a cross-platform, communitydriven, open-source visualization and collaboration tool that enables users to access, display, and share a variety of dataintensive information, in a variety of resolutions and format, frommultiple sources, on tiled display walls of arbitrary size. SAGE walls have had the ability to display digital-cinema animations, high resolution images, high-definition videoconferences, presentation slides, documents, spreadsheets, and computer screens; however, there was no way to display and manipulate histologic whole-slide images (WSIs). Our desire was to create a tool to permit the importation, display, and manipulation of WSI in the SAGE environment.
可扩展自适应图形环境(SAGE)由伊利诺伊大学芝加哥分校(UIC)电子可视化实验室(EVL)开发,以促进需要共享数据密集型信息进行分析的协作工作。SAGE是一个跨平台的、社区驱动的、开源的可视化和协作工具,使用户能够访问、显示和共享各种数据密集型信息,以各种分辨率和格式,从多个来源,在任意大小的平铺显示墙上。SAGE墙能够显示数字电影动画、高分辨率图像、高清视频会议、演示幻灯片、文档、电子表格和计算机屏幕;然而,没有办法显示和操作组织学整片图像(wsi)。我们的愿望是创建一个工具,允许在SAGE环境中输入、显示和操作WSI。
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引用次数: 1
The Role of Micro CT in the Imaging of Cancer 微型CT在肿瘤成像中的作用
Pub Date : 2014-12-25 DOI: 10.1155/2014/608206
M. Griffin, P. Anand, R. Tang, A. Zambeli-Ljepović, M. Senter-Zapata, M. Lewin-Berlin, A. Bui, J. Singh, K. Patel, W. Sarraj, J. Gilbertson, Y. Yagi, D. Kopans, R. Moore, A. Ly, M. Saksena, G. Nielsen, G. Harris, N. Gershenfeld, B. Smith, J. Michaelson
The absence of real-time, detailed, 3D information on the composition of surgical specimens presents an enormous challenge in surgical oncology and pathology.
缺乏手术标本组成的实时、详细的3D信息,对外科肿瘤学和病理学提出了巨大的挑战。
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引用次数: 3
Quantification Accuracy of Liver Fibrosis by In Vivo Elastography and Digital Image Analysis of Liver Biopsy Histochemistry 活体弹性成像和肝活检组织化学数字图像分析定量肝纤维化的准确性
Pub Date : 2014-12-23 DOI: 10.1155/2014/317635
J. Besusparis, S. Jokubauskiene, B. Plancoulaine, P. Herlin, A. Laurinavičienė, A. Buivydienė, A. Laurinavičius
1Department of Pathology, Forensic Medicine and Pharmacology, Faculty of Medicine, Vilnius University, 21 M. K. Ciurlionio Street, LT-03101 Vilnius, Lithuania 2Université de Caen, Esplanade de la Paix, 14032 Caen, France 3Centre of Hepatology, Gastroenterology and Dietetics, Vilnius University Hospital Santariskiu Clinics, 2 Santariskiu Street, LT-08661 Vilnius, Lithuania 4Clinic of Gastroenterology, Nephrourology and Surgery, Medical Faculty, Vilnius University, 2 Santariskiu Street, LT-08661 Vilnius, Lithuania
1Department of Pathology, Forensic Medicine and Pharmacology, Faculty of Medicine, Vilnius University, 21 M. K.Ciurlionio Street, LT-03101 Vilnius, Lithuania 2Université de Caen, Esplanade de la Paix, 14032 Caen, France 3Centre of Hepatology, Gastroenterology and Dietetics, Vilnius University Hospital Santariskiu Clinics, 2 Santariskiu Street, LT-08661 Vilnius, Lithuania 4Clinic of Gastroenterology, Nephrourology and Surgery, Medical Faculty, Vilnius University, 2 Santariskiu Street, LT-08661 Vilnius, Lithuania
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引用次数: 2
Digital Teleconsultation: Clinical Perspectives 数字远程会诊:临床视角
Pub Date : 2014-12-23 DOI: 10.1155/2014/460989
D. Wilbur
The emerging field of digital pathology has many applications including the ability to easily and quickly consult with colleagues at a distance.
数字病理学这一新兴领域有许多应用,包括能够轻松快速地与远程同事进行咨询。
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引用次数: 0
Digital Pathology: How Far Are We from Automated Tissue-Based Diagnosis? 数字病理学:我们离基于组织的自动诊断还有多远?
Pub Date : 2014-12-21 DOI: 10.1155/2014/458954
K. Kayser, S. Borkenfeld, A. Djenouni, Joachim Christian Manning, H. Kaltner, G. Kayser, H. Gabius
Basically, TBD investigates the function and structures of biological meaningful individual units, such as macromolecules, genes, nuclei, cells, vessels, and organs. All functions are bound to structures that ensure reliable and effective information and energy exchange. Disturbance of structures induces less effective or complete loss of functions. The complex interactions at molecular biological level (macromolecules) and their continuous reproduction require extensive computations in addition to the sophisticated biochemical analysis systems. Nearly all assessable information is of visual nature or can be visualized. Thus, image content analysis applied in a sophisticated manner might be one key procedure to assist human image interpretation or to even replace it. Image content information includes information that can be derived from predefined functional units (objects), their spatial arrangement (structure), pixel derived features prior of after image transformations (texture), and syntactic compositions of objects or of pixel based primitives (syntactic structure analysis). Statistically significant clusters can represent either new biological significant units (e.g., tubular arrangement of specific (endothelial) cells forming a vessel, spatial composition of cells of different nature (cellular sociology) forming a bronchus with assumed participation of endogenous lectins [1]) or other new items such as entropy flow charts and diffusion densities. All these parameters form a powerful set of image information features. They can be considered to be independent from each other and calculated independently for their specific clinical significance (disease association).
基本上,TBD研究有意义的生物个体单位的功能和结构,如大分子、基因、细胞核、细胞、血管和器官。所有功能都与确保可靠和有效的信息和能源交换的结构相绑定。结构的扰动导致功能的不太有效或完全丧失。分子生物学水平(大分子)上复杂的相互作用及其持续繁殖,除了需要复杂的生化分析系统外,还需要大量的计算。几乎所有可评估的信息都是可视化的或可以可视化的。因此,以复杂的方式应用图像内容分析可能是辅助人类图像解释甚至取代它的一个关键程序。图像内容信息包括可以从预定义的功能单元(对象)、它们的空间排列(结构)、图像转换之前或之后的像素派生特征(纹理)以及对象或基于像素的原语的句法组成(句法结构分析)中派生的信息。统计上显著的集群可以代表新的生物重要单位(例如,形成血管的特定(内皮)细胞的管状排列,不同性质的细胞的空间组成(细胞社会学)形成假定内源性凝集素参与的支气管[1])或其他新项目,如熵流程图和扩散密度。所有这些参数构成了一组强大的图像信息特征。由于其特定的临床意义(疾病关联),它们可以被认为是相互独立的,独立计算。
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引用次数: 2
Pathological Diagnosis with a Whole Slide Imaging System 全玻片成像系统病理诊断
Pub Date : 2014-12-17 DOI: 10.1155/2014/690804
D. Taniyama, K. Kuraoka, A. Saito, Miho Tanaka, Yoko Kodama, J. Sakane, Yukari Nakagawa, Naoko Yasumura, T. Nishimura, K. Taniyama
Diagnosis. A VS800 (OLYMPUS, Tokyo, Japan) in a WSI system and an AS-400 (KURABO, Tokyo, Japan) for the ASP systemwere used. Up to 100 slides consisting of biopsy, endoscopic mucosal resection (EMR), or endoscopic submucosal dissection (ESD) specimenswere scanned and stored digitally in one set and the digital images were viewed on a monitor in a separate room using a VS800 viewer. Ocular observation using a conventional microscope was used when necessary to look at the specimens directly. One hundred sixty-six biopsy specimens were analyzed to evaluate the basic ability of the current WSI system in making a pathological diagnosis.
诊断在WSI系统中使用VS800 (OLYMPUS, Tokyo, Japan),在ASP系统中使用AS-400 (KURABO, Tokyo, Japan)。由活检、内镜粘膜切除(EMR)或内镜粘膜下剥离(ESD)标本组成的多达100张载玻片被扫描并数字化存储在一组中,并使用VS800查看器在单独房间的监视器上查看数字图像。必要时使用常规显微镜进行眼部观察,直接观察标本。对166例活检标本进行分析,以评估当前WSI系统进行病理诊断的基本能力。
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引用次数: 1
Enhancing Automatic Classification of Hepatocellular Carcinoma Images through Image Masking, Tissue Changes, and Trabecular Features 通过图像掩蔽、组织变化和小梁特征增强肝癌图像的自动分类
Pub Date : 2014-12-17 DOI: 10.1155/2014/726782
Maulana Abdul Aziz, H. Kanazawa, Y. Murakami, Fumikazu Kimura, Masahiro Yamaguchi, T. Kiyuna, Yoshiko Yamashita, A. Saito, M. Ishikawa, Naoki Kobayashi, T. Abe, A. Hashiguchi, M. Sakamoto
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引用次数: 1
Validation of Whole Slide Imaging in Pathology 病理全片成像的验证
Pub Date : 2014-12-17 DOI: 10.1155/2014/476854
L. Pantanowitz
Validation of whole slide imaging (WSI) is an important process for clinical practice. From a vendor perspective, validation seeks to achieve premarket approval from a regulatory agency in order for them to sell their WSI devices for an intended use (e.g., primary diagnosis). Academic validations are different, as these research studies typically result in publications reporting results of a self-defined, focused validation and their findings may not be generalizable. In general, published validation studies show good concordance for diagnoses made by WSI compared to glass slides. Clinical validation in the laboratory involves documenting the process and results of a validation study for an intended clinical use. This is typically conducted in accordance with available recommendations and/or guidelines. Validation studies comparing WSI (digital slides) to glass sides (traditional light microscopy) customarily measure concordance (agreement) between these two modalities. However, this outcome measurement can be influenced by several factors including validation study design, technology used, user training, observer variability, and case difficulty. Interobserver variability is likely to be greater than intraobserver variability, as not all pathologists may agree on certain diagnoses. Several guidelines have been developed that address WSI validation, which includes the College of American Pathologists (CAP) recommendations developed for validating WSI for diagnostic purposes. These CAP recommendations were subsequently adopted by the American Telemedicine Association (ATA) clinical guidelines for telepathology. Practical guidelines that assist pathology laboratories seeking to validate their own WSI systems for diagnostic work not only are timely but also help promote digital pathology adoption.
全玻片成像(WSI)的验证是临床实践的重要过程。从供应商的角度来看,验证旨在获得监管机构的上市前批准,以便他们销售其WSI设备用于预期用途(例如,初步诊断)。学术验证是不同的,因为这些研究通常会导致出版物报告自我定义的结果,集中验证,他们的发现可能无法推广。一般来说,已发表的验证研究表明,与玻片相比,WSI诊断具有良好的一致性。实验室的临床验证包括为预期的临床用途记录验证研究的过程和结果。这通常是根据现有的建议和/或指导方针进行的。比较WSI(数字载玻片)和玻璃面(传统光学显微镜)的验证研究通常测量这两种模式之间的一致性(一致性)。然而,这种结果测量可能受到几个因素的影响,包括验证研究设计、使用的技术、用户培训、观察者变异性和病例难度。观察者之间的差异可能大于观察者内部的差异,因为并非所有的病理学家都同意某些诊断。针对WSI验证已经制定了一些指南,其中包括美国病理学家学会(CAP)为诊断目的验证WSI而制定的建议。这些CAP的建议随后被美国远程医疗协会(ATA)的远程病理学临床指南所采纳。实用指南,帮助病理实验室寻求验证自己的WSI系统诊断工作不仅是及时的,而且有助于促进数字病理学的采用。
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引用次数: 0
期刊
Analytical Cellular Pathology (Amsterdam)
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