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公开(公告)号：US11328420B2
公开(公告)日：2022-05-10
申请号：US16746101
申请日：2020-01-17
Applicant: Ventana Medical Systems, Inc. , HOFFMANN-LA ROCHE INC.
Inventor： Joerg Bredno , Astrid Heller , Gabriele Hoelzlwimmer
Abstract: The subject disclosure presents systems and methods for automatically selecting meaningful regions on a whole-slide image and performing quality control on the resulting collection of FOVs. Density maps may be generated quantifying the local density of detection results. The heat maps as well as combinations of maps (such as a local sum, ratio, etc.) may be provided as input into an automated FOV selection operation. The selection operation may select regions of each heat map that represent extreme and average representative regions, based on one or more rules. One or more rules may be defined in order to generate the list of candidate FOVs. The rules may generally be formulated such that FOVs chosen for quality control are the ones that require the most scrutiny and will benefit the most from an assessment by an expert observer.
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公开(公告)号：US11250566B2
公开(公告)日：2022-02-15
申请号：US16752494
申请日：2020-01-24
Applicant: Ventana Medical Systems, Inc.
Inventor： Michael Barnes , Joerg Bredno , Rebecca C. Bowermaster , Srinivas Chukka , Wen-Wei Liu , Kandavel Shanmugam , Junming Zhu
IPC: G06T7/00 , G01N33/574 , G16H10/00
Abstract: Immune context scores are calculated for tumor tissue samples using continuous scoring functions. Feature metrics for at least one immune cell marker are calculated for a region or regions of interest, the feature metrics including at least a quantitative measure of human CD3 or total lymphocyte counts. A continuous scoring function is then applied to a feature vector including the feature metric and at least one additional metric related to an immunological biomarker, the output of which is an immune context score. The immune context score may then be plotted as a function of a diagnostic or treatment metric, such as a prognostic metric (e.g. overall survival, disease-specific survival, progression-free survival) or a predictive metric (e.g. likelihood of response to a particular treatment course). The immune context score may then be incorporated into diagnostic and/or treatment decisions.
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公开(公告)号：US11222194B2
公开(公告)日：2022-01-11
申请号：US16474485
申请日：2017-12-20
Applicant: Ventana Medical Systems, Inc.
Inventor： Michael Barnes , Joerg Bredno , Jim F. Martin
Abstract: Systems and methods disclosed herein describe a platform that automatically creates and executes a scoring guide for use in anatomical pathology. The platform can employ a fully-automated workflow for clustering the biological objects of interest and for providing cell-by-cell read-outs of heterogeneous tumor biomarkers based on their stain appearance. The platform can include a module for automatically creating and storing a scoring guide in a training database based on training digital images (240, 250), and an object classification module that executes the scoring guide when presented with new digital images to be scored pursuant to the scoring guide (299).
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公开(公告)号：US11079382B2
公开(公告)日：2021-08-03
申请号：US15246409
申请日：2016-08-24
Applicant: Ventana Medical Systems, Inc.
Inventor： Noemi Sebastiao , William Day , Robert Ochs , Srinivas Chukka , Jim Martin , Michael Barnes , Joerg Bredno , Ting Chen , Alisa Tubbs , Yao Nie
IPC: G01N33/574 , G01N15/14 , G06F19/20 , G16B25/00 , G01N33/68 , G01N33/566 , G16B25/10 , G01N35/00 , G01N15/00 , G01N15/10
Abstract: This disclosure describes methods, kits, and systems for scoring the immune response to cancer through examination of tissue infiltrating lymphocytes (TILs). Methods of scoring the immune response in cancer using tissue infiltrating lymphocytes include detecting CD3, CD8, CD20, and FoxP3 within the sample and scoring the detection manually or scoring the digital images of the staining with the aid of image analysis and algorithms.
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公开(公告)号：US10573001B2
公开(公告)日：2020-02-25
申请号：US15659654
申请日：2017-07-26
Applicant: Ventana Medical Systems, Inc. , HOFFMANN-LA ROCHE INC.
Inventor： Joerg Bredno , Astrid Heller , Gabriele Hoelzlwimmer
Abstract: The subject disclosure presents systems and methods for automatically selecting meaningful regions on a whole-slide image and performing quality control on the resulting collection of FOVs. Density maps may be generated quantifying the local density of detection results. The heat maps as well as combinations of maps (such as a local sum, ratio, etc.) may be provided as input into an automated FOV selection operation. The selection operation may select regions of each heat map that represent extreme and average representative regions, based on one or more rules. One or more rules may be defined in order to generate the list of candidate FOVs. The rules may generally be formulated such that FOVs chosen for quality control are the ones that require the most scrutiny and will benefit the most from an assessment by an expert observer.
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56.发明申请
公开(公告)号：US20190340415A1
公开(公告)日：2019-11-07
申请号：US16474485
申请日：2017-12-20
Applicant: Ventana Medical Systems, Inc.
Inventor： Michael Barnes , Joerg Bredno , Jim F. Martin
Abstract: Systems and methods disclosed herein describe a platform that automatically creates and executes a scoring guide for use in anatomical pathology. The platform can employ a fully-automated workflow for clustering the biological objects of interest and for providing cell-by-cell read-outs of heterogeneous tumor biomarkers based on their stain appearance. The platform can include a module for automatically creating and storing a scoring guide in a training database based on training digital images (240, 250), and an object classification module that executes the scoring guide when presented with new digital images to be scored pursuant to the scoring guide (299).
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公开(公告)号：US10102418B2
公开(公告)日：2018-10-16
申请号：US15222889
申请日：2016-07-28
Applicant: Ventana Medical Systems, Inc.
Inventor： Joerg Bredno , Christophe Chefd'hotel , Ting Chen , Srinivas Chukka , Kien Nguyen
Abstract: A method of segmenting images of biological specimens using adaptive classification to segment a biological specimen into different types of tissue regions. The segmentation is performed by, first, extracting features from the neighborhood of a grid of points (GPs) sampled on the whole-slide (WS) image and classifying them into different tissue types. Secondly, an adaptive classification procedure is performed where some or all of the GPs in a WS image are classified using a pre-built training database, and classification confidence scores for the GPs are generated. The classified GPs with high confidence scores are utilized to generate an adaptive training database, which is then used to re-classify the low confidence GPs. The motivation of the method is that the strong variation of tissue appearance makes the classification problem more challenging, while good classification results are obtained when the training and test data origin from the same slide.
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公开(公告)号：US20160370565A1
公开(公告)日：2016-12-22
申请号：US14901700
申请日：2014-07-15
Applicant: VENTANA MEDICAL SYSTEMS, INC.
Inventor： Joerg Bredno , Jim F. Martin , Anindya Sarkar
CPC classification number: G02B21/244 , G02B21/006 , G02B21/0072 , G02B21/008 , G02B21/16 , G02B21/367 , G06K9/00127 , G06T7/80 , G06T2207/10056 , H04N5/23212 , H04N9/04
Abstract: Techniques for acquiring focused images of a microscope slide are disclosed. During a calibration phase, a “base” focal plane is determined using non-synthetic and/or synthetic auto-focus techniques. Furthermore, offset planes are determined for color channels (or filter bands) and used to generate an auto-focus model. During subsequent scans, the auto-focus model can be used to quickly estimate the focal plane of interest for each color channel (or filter band) rather than re-employing the non-synthetic and/or synthetic auto-focus techniques.
Abstract translation: 公开了获取显微镜幻灯片的聚焦图像的技术。 在校准阶段期间，使用非合成和/或合成自动对焦技术确定“基”焦平面。 此外，为颜色通道（或滤波器带）确定偏移平面，并用于生成自动对焦模型。 在随后的扫描期间，自动对焦模型可以用于快速估计每个颜色通道（或滤光片带）的感兴趣焦平面，而不是重新采用非合成和/或合成的自动对焦技术。
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59.发明申请
公开(公告)号：US20160363593A1
公开(公告)日：2016-12-15
申请号：US15246409
申请日：2016-08-24
Applicant: Ventana Medical Systems, Inc.
Inventor： Noemi Sebastiao , William Day , Robert Ochs , Srinivas Chukka , Jim Martin , Michael Barnes , Joerg Bredno , Ting Chen , Alisa Tubbs , Yao Nie
IPC: G01N33/574 , G01N15/14 , G06F19/20 , G01N35/00
CPC classification number: G01N33/5743 , G01N15/1463 , G01N33/566 , G01N33/574 , G01N33/57415 , G01N33/6875 , G01N35/00029 , G01N2015/008 , G01N2015/1006 , G01N2015/1486 , G01N2035/00138 , G01N2333/4703 , G01N2333/4739 , G01N2333/4742 , G01N2333/70503 , G01N2333/7051 , G01N2333/70517 , G16B25/00
Abstract: This disclosure describes methods, kits, and systems for scoring the immune response to cancer through examination of tissue infiltrating lymphocytes (TILs). Methods of scoring the immune response in cancer using tissue infiltrating lymphocytes include detecting CD3, CD8, CD20, and FoxP3 within the sample and scoring the detection manually or scoring the digital images of the staining with the aid of image analysis and algorithms.
Abstract translation: 本公开描述了通过检查组织浸润淋巴细胞（TIL）评分对癌症的免疫应答的方法，试剂盒和系统。 使用组织浸润淋巴细胞评估癌症免疫反应的方法包括检测样品中的CD3，CD8，CD20和FoxP3，手动评分检测，或借助图像分析和算法对染色的数字图像进行评分。
