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21. 发明申请

WO2018115055A1 COMPUTER SCORING BASED ON PRIMARY STAIN AND IMMUNOHISTOCHEMISTRY IMAGES 审中-公开
公开(公告)号：WO2018115055A1
公开(公告)日：2018-06-28
申请号：PCT/EP2017/083702
申请日：2017-12-20
申请人： VENTANA MEDICAL SYSTEMS, INC. , F. HOFFMANN-LA ROCHE AG
发明人： CHEN, Ting , CHUKKA, Srinivas , NGUYEN, Kien
IPC分类号： G06T7/00
摘要： Described herein are computer-implemented methods for analysis of a tissue sample. An example method includes: annotating the whole tumor regions or set of tumorous sub-regions either on a biomarker image or an H&E image (e.g. from an adjacent serial section of the biomarker image); registering at least a portion of the biomarker image to the H&E image; detecting different cellular and regional tissue structures within the registered H&E image; computing a probability map based on the different detected structures within the registered H&E image; deriving nuclear metrics from each of the biomarker and H&E images; deriving probability metrics from the probability map; and classifying tumor nuclei in the biomarker image based on the computed nuclear and probability metrics.

22. 发明申请

WO2018065434A1 DIGITAL PATHOLOGY SYSTEM AND ASSOCIATED WORKFLOW FOR PROVIDING VISUALIZED WHOLE-SLIDE IMAGE ANALYSIS 审中-公开
标题翻译：数字病理学系统和相关的工作流程，用于提供可视化的整体幻灯片图像分析
公开(公告)号：WO2018065434A1
公开(公告)日：2018-04-12
申请号：PCT/EP2017/075113
申请日：2017-10-04
申请人： VENTANA MEDICAL SYSTEMS, INC. , F. HOFFMANN-LA ROCHE AG
发明人： BARNES, Michael , BREDNO, Joerg , CHUKKA, Srinivas , GUETTER, Christoph , LORSAKUL, Auranuch , SARKAR, Anindya , SUZUE, Ellen
IPC分类号： G06T7/00
摘要： A digital pathology system and associated method and computer program product provide a quantitative analysis of entire tissue slides as well as intuitive, effective, fast, and precise quantification of biomarker expressions across relevant areas of the entire tissue slides. The digital pathology system enables a novel workflow that allows the user to efficiently outline clinically relevant morphology in its entirety, including solid tumor areas. Quantitative analysis results are then efficiently and intuitively provided to the user for all tissue content (i.e., millions of cells) within seconds. This efficiency is made possible by a pre-computation step that computes and stores image analysis results for later retrieval. Visualizing vast amount of data effectively is another component of the system that provides information and confidence to the user about the biomarker expression levels.
摘要翻译：数字病理学系统和相关方法以及计算机程序产品提供对整个组织切片的定量分析以及对整个组织切片的相关区域的生物标记表达的直观，有效，快速和精确的量化。数字病理系统实现了一种新颖的工作流程，使用户能够有效地勾勒整个临床相关形态，包括实体肿瘤区域。然后在数秒内将定量分析结果有效且直观地提供给用户以获得所有组织含量（即，数百万个细胞）。通过计算和存储图像分析结果以供稍后检索的预计算步骤，可以提高效率。有效显示大量数据是该系统的另一个组成部分，为用户提供有关生物标志物表达水平的信息和信心。

23. 发明申请

WO2017076865A1 COMPUTER-IMPLEMENTED COMPOSITE TISSUE IMAGE WITH REAL-TIME ADJUSTABLE INTERFACE 审中-公开
标题翻译：具有实时可调接口的计算机实现的复合组织图像
公开(公告)号：WO2017076865A1
公开(公告)日：2017-05-11
申请号：PCT/EP2016/076351
申请日：2016-11-02
申请人： VENTANA MEDICAL SYSTEMS, INC. , F. HOFFMANN-LA ROCHE AG
发明人： BREDNO, Joerg , CHUKKA, Srinivas
IPC分类号： G06T7/33 , G06T11/00
CPC分类号： G06T7/33 , G06T11/00 , G06T2207/10056 , G06T2207/20012 , G06T2207/20092 , G06T2207/20221 , G06T2207/30024
摘要： The disclosure relates to devices, systems and methods for generating a digital image of a tissue section that is a composite of two or more source digital images of adjacent tissue sections and which may have a real-time adjustable boundary between different source images. The devices include computer software products for a fused-view visualization tool which permits one or more of generating and displaying the composite image and modifying the location of one or more boundaries between source images comprising the composite image. The systems include computer-implemented systems such as work stations and networked computers for analyzing tissue samples using the fused-view visualization tool. The methods include processes for visualization of a tissue sample as a composite image derived from two or more slides of adjacent tissue sections, for example as an interactive composite image wherein the proportion of each source image in the composite image may be altered.
摘要翻译：本公开涉及用于生成组织部分的数字图像的设备，系统和方法，所述组织部分是相邻组织部分的两个或更多个源数字图像的组合的复合，并且可以具有实时可调不同源图像之间的边界。这些设备包括用于融合视图可视化工具的计算机软件产品，其允许生成和显示合成图像以及修改组成合成图像的源图像之间的一个或多个边界的位置中的一个或多个。该系统包括计算机实现的系统，如工作站和联网计算机，用于使用融合视图可视化工具分析组织样本。该方法包括用于将组织样本可视化为从相邻组织切片的两个或更多个切片导出的合成图像的过程，例如作为交互式合成图像，其中可以改变合成图像中每个源图像的比例。

24. 发明申请

WO2016020391A2 IMAGE ANALYSIS SYSTEM USING CONTEXT FEATURES 审中-公开
标题翻译：使用上下文特征的图像分析系统
公开(公告)号：WO2016020391A2
公开(公告)日：2016-02-11
申请号：PCT/EP2015/067972
申请日：2015-08-04
申请人： VENTANA MEDICAL SYSTEMS, INC. , F. HOFFMANN-LA ROCHE AG
发明人： CHUKKA, Srinivas , NIE, Yao
IPC分类号： G06K9/00
CPC分类号： G06K9/00147 , G06K9/6269 , G06K9/627 , G06K9/6277 , G06K9/6292 , G06K2209/05
摘要： The present disclosure relates to an image analysis system for identifying objects belonging to a particular objet class in a digital image (102-108) of a biological sample, the system comprising a processor and memory, the memory comprising interpretable instructions which, when executed by the processor, cause the processor to perform a method comprising: - analyzing (602) the digital image for automatically or semi-automatically identifying objects in the digital image; - analyzing (604) the digital image for identifying, for each object, a first object feature value (202, 702) of a first object feature of said object; - analyzing (606) the digital image for computing one or more first context feature values (204, 704), each first context feature value being a derivative of the first object feature values or of other object feature values of a plurality of the objects in the digital image or being a derivative of a plurality of pixels of the digital image; - inputting (608) both the first object feature value of each of the objects in the digital image and the first context feature value of said digital image into a first classifier (210, 710); and - executing (610) the first classifier, the first classifier thereby using the first object feature value of each object and the one or more first context feature values as input for automatically determining, for said object, a first likelihood (216, 714) of said object of being a member of the object class.
摘要翻译：本公开涉及一种用于识别属于生物样本的数字图像（102-108）中的特定对象类的对象的图像分析系统，所述系统包括处理器和存储器，所述存储器包括可解释的指令，所述可解释的指令在由所述处理器执行时使所述处理器执行包括以下的方法： - 分析（602）所述数字图像以自动或半自动地识别所述数字图像中的物体; - 分析（604）数字图像，用于针对每个对象识别所述对象的第一对象特征的第一对象特征值（202,702）; - - 分析（606）用于计算一个或多个第一上下文特征值（204,704）的数字图像，每个第一上下文特征值是第一对象特征值或多个对象中的对象的特征值的导数数字图像或者是数字图像的多个像素的导数; - 将数字图像中的每个对象的第一对象特征值和所述数字图像的第一上下文特征值输入（608）到第一分类器（210,710）中; 以及 - 执行（610）所述第一分类器，所述第一分类器由此使用每个对象的所述第一对象特征值和所述一个或多个第一上下文特征值作为输入以用于针对所述对象自动确定第一似然性（216,714）所述对象是对象类的成员。

25. 发明申请

WO2016016306A1 SYSTEMS AND METHODS FOR COLOR DECONVOLUTION 审中-公开
标题翻译：用于彩色去卷积的系统和方法
公开(公告)号：WO2016016306A1
公开(公告)日：2016-02-04
申请号：PCT/EP2015/067384
申请日：2015-07-29
申请人： VENTANA MEDICAL SYSTEMS, INC. , F. HOFFMANN-LA ROCHE AG
发明人： CHEN, Ting , CHUKKA, Srinivas
IPC分类号： G06T7/40
CPC分类号： G06T7/0012 , G06T7/90 , G06T2207/10024 , G06T2207/10056 , G06T2207/30024
摘要： The present invention involves a computer-implemented unmixing algorithm that employs a least-square method involving image patches, and a computer-implemented unmixing or color deconvolution method that incorporates spatial smoothness and structure continuity constraints, for example, into a neighborhood graph regularizer (i.e., using a graph to enforce the pixel value similarities for those pixels in the same neighborhood).
摘要翻译：本发明涉及采用涉及图像补丁的最小二乘法的计算机实现的混合算法，以及将空间平滑度和结构连续性约束（例如，将空间平滑度和结构连续性约束）结合到邻域图正则化器中的计算机实现的混合或颜色去卷积方法，使用图来强制相同邻域中的那些像素的像素值相似度）。

26. 发明申请

WO2016016125A1 AUTOMATIC GLANDULAR AND TUBULE DETECTION IN HISTOLOGICAL GRADING OF BREAST CANCER 审中-公开
标题翻译：乳腺癌病理分级中的自动葡萄糖和血管检测
公开(公告)号：WO2016016125A1
公开(公告)日：2016-02-04
申请号：PCT/EP2015/067007
申请日：2015-07-24
申请人： VENTANA MEDICAL SYSTEMS, INC. , F. HOFFMANN-LA ROCHE AG
发明人： BARNES, Michael , CHUKKA, Srinivas , CHEFD´HOTEL, Christophe , NGUYEN, Kien
IPC分类号： G06K9/00
CPC分类号： G06K9/6227 , G06K9/00127 , G06K9/0014 , G06K9/00147 , G06K9/4647 , G06K9/6256 , G06K9/66 , G06T7/0012 , G06T7/11 , G06T7/13 , G06T7/40 , G06T2207/30024 , G06T2207/30068 , G06T2207/30096
摘要： Methods, systems, and apparatuses for automatically identifying glandular regions and tubule regions in a breast tissue sample are provided. An image of breast tissue is analyzed to detect nuclei and lumen candidates, identify tumor nuclei and true lumen from the candidates, and group tumor nuclei with neighboring tumor nuclei and lumina to define tubule glandular regions and non-tubule glandular regions of the image. Learnt supervised classifiers, such as random forest classifiers, can be applied to identify and classify the tumor nuclei and true lumina. Graph-cut methods can be applied to group the tumor nuclei and lumina and to define the tubule glandular regions and non-tubule glandular regions. The analysis can be applied to whole slide images and can resolve tubule areas with multiple layers of nuclei.
摘要翻译：提供了用于自动识别乳腺组织样品中的腺体区域和小管区域的方法，系统和装置。分析乳腺组织的图像以检测核和管腔候选物，从候选物中鉴定肿瘤细胞核和真腔，并将肿瘤细胞核与相邻的肿瘤细胞核和细胞核组合起来，以确定图像的小管腺体区域和非小管腺体区域。学习的监督分类器，如随机森林分类器，可用于识别和分类肿瘤细胞核和真实的水肿。图形方法可用于分组肿瘤细胞核和腔，并定义小管腺体区域和非小管腺体区域。分析可以应用于整张幻灯片图像，并可以解决具有多层核的小管区域。

27. 发明申请

WO2015124777A1 MEDICAL IMAGE ANALYSIS FOR IDENTIFYING BIOMARKER-POSITIVE TUMOR CELLS 审中-公开
标题翻译：用于识别生物标志物阳性肿瘤细胞的医学图像分析
公开(公告)号：WO2015124777A1
公开(公告)日：2015-08-27
申请号：PCT/EP2015/053757
申请日：2015-02-23
申请人： VENTANA MEDICAL SYSTEMS, INC. , F. HOFFMANN-LA ROCHE AG
发明人： CHUKKA, Srinivas , YUAN, Quan
IPC分类号： G06T7/00
CPC分类号： G06T7/0012 , G06K9/0014 , G06T2207/10004 , G06T2207/30024 , G06T2207/30096 , G06T2207/30242
摘要： The invention relates to a medical image analysis method for identifying biomarker- positive tumor cells, the method comprising: - reading a first digital image (223) and a second digital image (222) into memory, the first and second digital image depicting the same area of a first slide; • the first slide comprising multiple tumor cells having being stained with a first stain and with a second stain; • the first stain selectively staining nuclei and the second stain selectively staining a particular biomarker, the presence and/or amount of the biomarker in a tumor cell being indicative of a tumor cell belonging to a particular cancer-subtype; - identifying a plurality of nuclei and positional information of said nuclei by analyzing the light intensities in the first digital image; - identifying cell membranes which comprise the biomarker by analyzing the light intensities in the second digital image and by analyzing the positional information of the identified nuclei; - identifying biomarker-positive tumor cells in said area, wherein a biomarker- positive tumor cell is a combination of one identified nucleus and one identified cell membrane that surrounds the identified nucleus.
摘要翻译：本发明涉及一种用于鉴定生物标志物阳性肿瘤细胞的医学图像分析方法，所述方法包括： - 将第一数字图像（223）和第二数字图像（222）读入存储器，所述第一和第二数字图像描绘相同第一张幻灯片的区域; •包含多个肿瘤细胞的第一载玻片被第一个染色和第二次染色染色; •第一染色选择性染色细胞核，第二染色选择性染色特定的生物标志物，肿瘤细胞中生物标志物的存在和/或量指示属于特定癌症亚型的肿瘤细胞; - 通过分析第一数字图像中的光强度来识别所述核的多个核和位置信息; - 通过分析第二数字图像中的光强度并通过分析鉴定的核的位置信息来鉴定包含生物标志物的细胞膜; - 识别所述区域中的生物标志物阳性肿瘤细胞，其中生物标记阳性肿瘤细胞是一个鉴定的核和围绕所鉴定的核的一个鉴定的细胞膜的组合。

28. 发明申请

WO2015101507A1 SYSTEMS AND METHODS FOR SPECTRAL UNMIXING OF MICROSCOPIC IMAGES USING PIXEL GROUPING 审中-公开
标题翻译：使用像素分组对微观图像进行光谱分析的系统和方法
公开(公告)号：WO2015101507A1
公开(公告)日：2015-07-09
申请号：PCT/EP2014/078392
申请日：2014-12-18
申请人： VENTANA MEDICAL SYSTEMS, INC. , F. HOFFMANN-LA ROCHE AG
发明人： CHUKKA, Srinivas , YUAN, Quan
IPC分类号： G06K9/00 , G06K9/62
CPC分类号： G06T7/0012 , G06K9/00127 , G06K9/0014 , G06K9/4642 , G06K9/52 , G06K9/6215 , G06K9/6218 , G06K9/6232 , G06K2009/4666 , G06T3/40 , G06T2207/10056 , G06T2207/20021
摘要： Systems and methods for speeding up a spectral unmixing process by using pixel groups are disclosed. Operations including forming groups of similar pixels, and unmixing only one representative pixel from each pixel group enable determination of an unmixing result for all the pixels in the group. A similarity metric may be based on a dot product of an unprocessed pixel with the representative pixel in the subset of pixels. The method is repeated for any number of remaining unmatched pixels that exceed a threshold, until the number of remaining or unmatched pixels is smaller than the threshold, upon which the remaining pixels may be individually unmixed. Significantly fewer unmixing operations are performed on an image, thereby speeding up the unmixing process.
摘要翻译：公开了通过使用像素组来加速光谱解混合处理的系统和方法。包括形成相似像素组的操作和仅混合每个像素组中的一个代表像素使得可以确定组中所有像素的解混合结果。相似性度量可以基于未处理像素与像素子集中的代表像素的点积。对于超过阈值的任何数量的剩余不匹配像素重复该方法，直到剩余或不匹配像素的数量小于阈值，剩余像素可以单独地不混合。在图像上执行显着少的解混合操作，从而加快了混合过程。

29. 发明申请

WO2014140070A2 WHOLE SLIDE IMAGE REGISTRATION AND CROSS-IMAGE ANNOTATION DEVICES, SYSTEMS AND METHODS 审中-公开
标题翻译：全滑动图像注册和跨图像注册设备，系统和方法
公开(公告)号：WO2014140070A2
公开(公告)日：2014-09-18
申请号：PCT/EP2014/054781
申请日：2014-03-12
申请人： VENTANA MEDICAL SYSTEMS, INC. , F. HOFFMANN-LA ROCHE AG
发明人： CHUKKA, Srinivas , SABATA, Bikash , SARKAR, Anindya , YUAN, Quan
IPC分类号： G06T7/00
CPC分类号： G06T7/0014 , G06K9/00127 , G06K9/46 , G06K9/6201 , G06T7/33 , G06T7/38 , G06T11/60 , G06T2200/24 , G06T2207/30024
摘要： The disclosure relates to devices, systems and methods for image registration and annotation. The devices include computer software products for aligning whole slide digital images on a common grid and transferring annotations from one aligned image to another aligned image on the basis of matching tissue structure. The systems include computer-implemented systems such as work stations and networked computers for accomplishing the tissue-structure based image registration and cross-image annotation. The methods include processes for aligning digital images corresponding to adjacent tissue sections on a common grid based on tissue structure, and transferring annotations from one of the adjacent tissue images to another of the adjacent tissue images.
摘要翻译：本公开涉及用于图像注册和注释的装置，系统和方法。这些设备包括用于在公共网格上对齐整个幻灯片数字图像的计算机软件产品，并且基于匹配的组织结构将注释从一个对齐的图像转移到另一个对齐的图像。这些系统包括计算机实现的系统，例如工作站和网络计算机，用于完成基于组织结构的图像配准和跨图像注释。所述方法包括基于组织结构对准在公共网格上对应于相邻组织部分的数字图像并将注释从相邻组织图像之一转移到相邻组织图像中的另一个的处理。

30. 发明申请

WO2014102130A1 IMAGE ANALYSIS FOR BREAST CANCER PROGNOSIS 审中-公开
标题翻译：乳腺癌预后的图像分析
公开(公告)号：WO2014102130A1
公开(公告)日：2014-07-03
申请号：PCT/EP2013/077295
申请日：2013-12-19
申请人： VENTANA MEDICAL SYSTEMS, INC. , CLEVELAND CLINIC FOUNDATION , THE UNIVERSITY OF MELBOURNE , F. HOFFMANN-LA ROCHE AG
发明人： CHUKKA, Srinivas , SARKAR, Anindya , SCHEMP, Crystal , SERTEL, Olcay , SINGH, Shalini , TUBBS, Raymond , WARING, Paul Michael , WICK, Nikolaus
IPC分类号： G01N33/574 , G06F19/00
CPC分类号： G06F19/3431 , G01N33/57415 , G01N2800/52 , G01N2800/54 , G06F19/00 , G06F19/22 , G06F19/321 , G16H50/30
摘要： Heterogeneity for biomarkers in a tissue sample can be calculated. A heterogeneity score can be combined with an immunohistochemistry combination score to provide breast cancer recurrence prognosis. Heterogeneity can be based on percent positivity determinations for a plurality of biomarkers according to how many cells in the sample stain positive. An immunohistochemistry combination score can be calculated. An imaging tool can support a digital pathologist workflow that includes designating fields of view in an image of the tissue sample. Based on the fields of view, a heterogeneity metric can be calculated and combined with an immunohistochemistry combination score to generate a breast cancer recurrence prognosis score.
摘要翻译：可以计算组织样品中生物标志物的异质性。异质性评分可与免疫组织化学组合评分相结合，以提供乳腺癌复发预后。异质性可以基于多个生物标志物的百分比阳性测定，根据样品中多少个细胞染色阳性。可以计算免疫组织化学组合评分。成像工具可以支持包括在组织样本的图像中指定视野的数字病理学家工作流程。基于视野，可以计算异质性度量，并与免疫组织化学组合评分相结合，产生乳腺癌复发预后评分。

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