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1. 发明申请

WO2016087589A1 METHODS, SYSTEMS, AND APPARATUSES FOR QUANTITATIVE ANALYSIS OF HETEROGENEOUS BIOMARKER DISTRIBUTION 审中-公开
标题翻译：异源生物标志物分布定量分析的方法，系统和装置
公开(公告)号：WO2016087589A1
公开(公告)日：2016-06-09
申请号：PCT/EP2015/078532
申请日：2015-12-03
申请人： VENTANA MEDICAL SYSTEMS, INC. , OREGON HEALTH & SCIENCE UNIVERSITY , F. HOFFMANN-LA ROCHE AG
发明人： BARNES, Michael , CHAFIN, David , GARSHA, Karl , GROGAN, Thomas M. , ROBERTS, Esteban , STEVENS, Benjamin , VENTURA, Frank , CHEFD´HOTEL, Christophe , SHANMUGAM, Kandavel , GRAY, Joe , RAMUNNO-JOHNSON, Damien , QUOC VU, Tothu (Tania)
IPC分类号： G06K9/00 , G06K9/62 , G06T7/00 , G01N33/50 , G06T7/40
CPC分类号： G06T7/0012 , G06K9/00147 , G06K9/3233 , G06K9/4652 , G06K9/6222 , G06T7/11 , G06T7/90 , G06T2207/10036 , G06T2207/10056 , G06T2207/10064 , G06T2207/20032 , G06T2207/20104 , G06T2207/20152 , G06T2207/30024 , G06T2207/30096
摘要： Methods, systems, and apparatuses for detecting and describing heterogeneity in a cell sample are disclosed herein. A plurality of fields of view (FOV) are generated for one or more areas of interest (AOI) within an image of the cell sample are generated. Hyperspectral or multispectral data from each FOV is organized into an image stack containing one or more z-layers, with each z-layer containing intensity data for a single marker at each pixel in the FOV. A cluster analysis is applied to the image stacks, wherein the clustering algorithm groups pixels having a similar ratio of detectable marker intensity across layers of the z-axis, thereby generating a plurality of clusters having similar expression patterns.
摘要翻译：本文公开了用于检测和描述细胞样品中的异质性的方法，系统和装置。生成针对单元样本的图像内的一个或多个感兴趣区域（AOI）的多个视野（FOV）。来自每个FOV的高光谱或多光谱数据被组织成包含一个或多个z层的图像堆叠，每个z层包含FOV中每个像素处的单个标记的强度数据。聚类分析被应用于图像堆叠，其中聚类算法对像素具有在z轴的层之间具有相似比率的可检测标记强度，从而生成具有相似表达模式的多个簇。

2. 发明申请

WO2014118326A2 SYSTEMS AND METHODS FOR CALIBRATING, CONFIGURING AND VALIDATING AN IMAGING DEVICE OR SYSTEM FOR MULTIPLEX TISSUE ASSAYS 审中-公开
标题翻译：用于校准，配置和验证用于多组织分析的成像装置或系统的系统和方法
公开(公告)号：WO2014118326A2
公开(公告)日：2014-08-07
申请号：PCT/EP2014/051920
申请日：2014-01-31
申请人： VENTANA MEDICAL SYSTEMS, INC. , F. HOFFMANN-LA ROCHE AG
发明人： GARSHA, Karl , OTTER, Michael , PESTANO, Gary Anthony , VENTURA, Frank
IPC分类号： G01J3/28
CPC分类号： G01J3/0297 , G01J3/10 , G01J3/28 , G01J3/2823 , G01J3/44 , G01J3/4406 , G01J2003/2826 , G01N21/274 , G02B21/365 , G06K9/0014 , G06T7/80
摘要： A system and method for characterization and/or calibration of performance of a multispectral imaging (MSI) system equipping the MSI system for use with a multitude of different fluorescent specimens while being independent on optical characteristics of a specified specimen and providing an integrated system level test for the MSI system. A system and method are adapted to additionally evaluate and express operational parameters performance of the MSI system in terms of standardized units and/or to determine the acceptable detection range of the MSI system.
摘要翻译：一种用于多光谱成像（MSI）系统的性能表征和/或校准的系统和方法，所述多光谱成像（MSI）系统使MSI系统与多个不同的荧光样本一起使用，同时独立于指定的光学特性标本并为MSI系统提供集成的系统级测试。系统和方法适于根据标准化单元额外地评估和表达MSI系统的操作参数性能和/或确定MSI系统的可接受检测范围。

3. 发明申请

WO2016189065A1 METHOD AND SYSTEM FOR ASSESSING STAIN QUALITY FOR IN-SITU HYBRIDIZATION AND IMMUNOHISTOCHEMISTRY 审中-公开
标题翻译：评估原位杂交和免疫组织化学染色质量的方法和系统
公开(公告)号：WO2016189065A1
公开(公告)日：2016-12-01
申请号：PCT/EP2016/061859
申请日：2016-05-25
申请人： VENTANA MEDICAL SYSTEMS, INC. , F. HOFFMANN-LA ROCHE AG
发明人： GARSHA, Karl , OTTER, Michael , STEVENS, Benjamin , TAFT, Jefferson , VENTURA, Frank
IPC分类号： G06K9/00 , G01N1/30
CPC分类号： G06K9/00127 , G01N1/30
摘要： Immunohistochemistry (IHC) and in situ hybridization (ISH) have the aim of detecting, localizing and quantifying certain analytes for various diagnostic purposes. The quality of the stains which are analyzed may deviate for various reasons. Therefore, the present invention provides a method and system for assessing the stain quality and for establishing objective criteria for assessing the stain quality for application in the fields of in-situ hybridization and immunohistochemistry. In one possible embodiment, the invention comprises the steps of unmixing multi-spectral image data of a tissue specimen to obtain analyte intensity images, each analyte intensity image comprising signals from a single stain, computing metrics based on the analyte intensity images, wherein the metrics are uniformity, distribution and/or dispersion of pixel intensity values in the analyte intensity images and assessing a stain quality of a slide by comparing the computed metrics to pre-determined cutoff values regarding uniformity, distribution and/or dispersion of pixel intensity, wherein the stain quality of the slide is assessed as acceptable if the computed metrics meet or exceed the pre-determined cutoff values, and wherein the stain quality of the slide is assessed as unacceptable if the computed metrics do not meet the pre-determined cutoff values. In order to establish objective criteria for assessing stain quality, in one possible embodiment, the method and system includes the step of deriving cut-off values for uniformity, distribution and/or dispersion of pixel intensity by combining the computed metrics based on the analyte intensity images with pre-established data quantifying the stain quality.
摘要翻译：免疫组化（IHC）和原位杂交（ISH）的目的是检测，定位和量化某些分析物用于各种诊断目的。由于各种原因，分析的污渍的质量可能会偏离。因此，本发明提供了一种用于评估染色质量的方法和系统，并且用于建立用于评估在原位杂交和免疫组织化学领域中应用的染色质量的客观标准。在一个可能的实施例中，本发明包括以下步骤：混合组织样本的多光谱图像数据以获得分析物强度图像，每个分析物强度图像包括来自单个染色层的信号，基于分析物强度图像计算度量，其中度量是分析物强度图像中的像素强度值的均匀性，分布和/或分散，并且通过将所计算的度量与对于像素强度的均匀性，分布和/或色散的预定截止值进行比较来评估载玻片的染色质量，其中如果所计算的度量达到或超过预定的截止值，则幻灯片的染色质量被评估为可接受，并且其中如果所计算的度量不满足预定的截止值，则幻灯片的染色质量被评估为不可接受。为了确定评估染色质量的客观标准，在一个可能的实施例中，该方法和系统包括通过基于分析物强度组合所计算的度量来导出像素强度的均匀性，分布和/或色散的截止值的步骤具有预先确定的数据的图像来量化染色质量。

4. 发明公开

EP3227830A1 METHODS, SYSTEMS, AND APPARATUSES FOR QUANTITATIVE ANALYSIS OF HETEROGENEOUS BIOMARKER DISTRIBUTION 有权
标题翻译：用于定量分析非均匀生物标记分布的方法，系统和装置
公开(公告)号：EP3227830A1
公开(公告)日：2017-10-11
申请号：EP15813713.3
申请日：2015-12-03
申请人： Ventana Medical Systems, Inc. , Oregon Health & Science University
发明人： BARNES, Michael , CHAFIN, David , GARSHA, Karl , GROGAN, Thomas M. , ROBERTS, Esteban , STEVENS, Benjamin , VENTURA, Frank , CHEFD'HOTEL, Christophe , SHANMUGAM, Kandavel , GRAY, Joe , RAMUNNO-JOHNSON, Damien , VU, Tothu (Tania)
IPC分类号： G06K9/00 , G06K9/62 , G06T7/00 , G01N33/50 , G06T7/40
CPC分类号： G06T7/0012 , G06K9/00147 , G06K9/3233 , G06K9/4652 , G06K9/6222 , G06T7/11 , G06T7/90 , G06T2207/10036 , G06T2207/10056 , G06T2207/10064 , G06T2207/20032 , G06T2207/20104 , G06T2207/20152 , G06T2207/30024 , G06T2207/30096
摘要： Methods, systems, and apparatuses for detecting and describing heterogeneity in a cell sample are disclosed herein. A plurality of fields of view (FOV) are generated for one or more areas of interest (AOI) within an image of the cell sample are generated. Hyperspectral or multispectral data from each FOV is organized into an image stack containing one or more z-layers, with each z-layer containing intensity data for a single marker at each pixel in the FOV. A cluster analysis is applied to the image stacks, wherein the clustering algorithm groups pixels having a similar ratio of detectable marker intensity across layers of the z-axis, thereby generating a plurality of clusters having similar expression patterns.
摘要翻译：本文公开了用于检测和描述细胞样品中异质性的方法，系统和装置。针对细胞样品的图像内的一个或多个感兴趣区域（AOI）生成多个视场（FOV）。来自每个FOV的高光谱或多光谱数据组织成包含一个或多个z层的图像堆栈，每个z层包含FOV中每个像素处的单个标记的强度数据。将聚类分析应用于图像堆栈，其中聚类算法对具有跨越z轴的层的可检测标记强度的相似比率的像素进行分组，从而生成具有相似表达模式的多个聚类。

5. 发明公开

EP3304415A1 METHOD AND SYSTEM FOR ASSESSING STAIN QUALITY FOR IN-SITU HYBRIDIZATION AND IMMUNOHISTOCHEMISTRY 有权
标题翻译：评估原位杂交和免疫组织化学质量的方法和系统
公开(公告)号：EP3304415A1
公开(公告)日：2018-04-11
申请号：EP16725132.1
申请日：2016-05-25
申请人： Ventana Medical Systems, Inc.
发明人： GARSHA, Karl , OTTER, Michael , STEVENS, Benjamin , TAFT, Jefferson , VENTURA, Frank
IPC分类号： G06K9/00 , G01N1/30
CPC分类号： G06K9/00127 , G01N1/30 , G06K9/38 , G06K2009/4657
摘要： Immunohistochemistry (IHC) and in situ hybridization (ISH) have the aim of detecting, localizing and quantifying certain analytes for various diagnostic purposes. The quality of the stains which are analyzed may deviate for various reasons. Therefore, the present invention provides a method and system for assessing the stain quality and for establishing objective criteria for assessing the stain quality for application in the fields of in-situ hybridization and immunohistochemistry. In one possible embodiment, the invention comprises the steps of unmixing multi-spectral image data of a tissue specimen to obtain analyte intensity images, each analyte intensity image comprising signals from a single stain, computing metrics based on the analyte intensity images, wherein the metrics are uniformity, distribution and/or dispersion of pixel intensity values in the analyte intensity images and assessing a stain quality of a slide by comparing the computed metrics to pre-determined cutoff values regarding uniformity, distribution and/or dispersion of pixel intensity, wherein the stain quality of the slide is assessed as acceptable if the computed metrics meet or exceed the pre-determined cutoff values, and wherein the stain quality of the slide is assessed as unacceptable if the computed metrics do not meet the pre-determined cutoff values. In order to establish objective criteria for assessing stain quality, in one possible embodiment, the method and system includes the step of deriving cut-off values for uniformity, distribution and/or dispersion of pixel intensity by combining the computed metrics based on the analyte intensity images with pre-established data quantifying the stain quality.

6. 发明公开

EP2951543A2 SYSTEMS AND METHODS FOR CALIBRATING, CONFIGURING AND VALIDATING AN IMAGING DEVICE OR SYSTEM FOR MULTIPLEX TISSUE ASSAYS 有权
标题翻译：系统和校准，设定和验证MULTIPLEX面料测试的一个成像设备和系统的方法
公开(公告)号：EP2951543A2
公开(公告)日：2015-12-09
申请号：EP14702810.4
申请日：2014-01-31
申请人： Ventana Medical Systems, Inc.
发明人： GARSHA, Karl , OTTER, Michael , PESTANO, Gary Anthony , VENTURA, Frank
IPC分类号： G01J3/28 , G01J3/44 , G01N21/27 , G02B21/36 , G01J3/10
CPC分类号： G01J3/0297 , G01J3/10 , G01J3/28 , G01J3/2823 , G01J3/44 , G01J3/4406 , G01J2003/2826 , G01N21/274 , G02B21/365 , G06K9/0014 , G06T7/80
摘要： A system and method for characterization and/or calibration of performance of a multispectral imaging (MSI) system equipping the MSI system for use with a multitude of different fluorescent specimens while being independent on optical characteristics of a specified specimen and providing an integrated system level test for the MSI system. A system and method are adapted to additionally evaluate and express operational parameters performance of the MSI system in terms of standardized units and/or to determine the acceptable detection range of the MSI system.
摘要翻译：一种用于表征和/或的多光谱成像（MSI）系统装备使用的MSI系统用不同的荧光的标本，同时在指定的标本的光学特性是独立和集成的系统级测试提供的大量的性能校准系统和方法为MSI系统。一种系统和方法是angepasst额外评估和表示在标准化的单元和/或确定性矿井MSI系统的可接受的检测范围方面MSI系统的操作参数的性能。

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