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1.发明授权公开(公告)号：US10664967B2
公开(公告)日：2020-05-26
申请号：US15606122
申请日：2017-05-26
发明人： Michael Barnes , David Chafin , Karl Garsha , Thomas M. Grogan , Esteban Roberts , Benjamin Stevens , Franklin Ventura , Christophe Chefd'hotel , Kandavel Shanmugam , Joe Gray , Damien Ramunno-Johnson , Tania Vu , Brian J. Druker , Thomas Jacob
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.
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2.发明申请公开(公告)号：US20170262984A1
公开(公告)日：2017-09-14
申请号：US15606122
申请日：2017-05-26
发明人： Michael Barnes , David Chafin , Karl Garsha , Thomas M. Grogan , Esteban Roberts , Benjamin Stevens , Franklin Ventura , Christophe Chefd'hotel , Kandavel Shanmugam , Joe Gray , Damien Ramunno-Johnson , Tania Vu
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.
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3.发明申请公开(公告)号：US20210279870A1
公开(公告)日：2021-09-09
申请号：US17329966
申请日：2021-05-25
发明人： Michael Barnes , David Chafin , Karl Garsha , Thomas M. Grogan , Esteban Roberts , Benjamin Stevens , Franklin Ventura , Christophe Chefd'hotel , Kandavel Shanmugam , Joe Gray , Damien Ramunno-Johnson , Tothu Tania Vu , Brian J. Druker , Thomas Jacob
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.
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4.发明授权公开(公告)号：US11049247B2
公开(公告)日：2021-06-29
申请号：US16811688
申请日：2020-03-06
发明人： Michael Barnes , David Chafin , Karl Garsha , Thomas M. Grogan , Esteban Roberts , Benjamin Stevens , Franklin Ventura , Christophe Chefd'hotel , Kandavel Shanmugam , Joe Gray , Damien Ramunno-Johnson , Tothu Tania Vu , Brian J. Druker , Thomas Jacob
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.
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5.发明申请公开(公告)号：US20200219256A1
公开(公告)日：2020-07-09
申请号：US16811688
申请日：2020-03-06
发明人： Michael Barnes , David Chafin , Karl Garsha , Thomas M. Grogan , Esteban Roberts , Benjamin Stevens , Franklin Ventura , Christophe Chefd'hotel , Kandavel Shanmugam , Joe Gray , Damien Ramunno-Johnson , Tothu Tania Vu , Brian J. Druker , Thomas Jacob
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.
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6.发明申请公开(公告)号：US20220223230A1
公开(公告)日：2022-07-14
申请号：US17584466
申请日：2022-01-26
摘要： The present disclosure relates to automated systems and methods for quantitatively determining an unmasking status of a biological specimen subjected to an unmasking process (e.g. an antigen retrieval process and/or a target retrieval process) using a trained unmasking status estimation engine. In some embodiments, the trained unmasking status estimation engine comprises a machine learning algorithm based on a projection onto latent structure regression model. In some embodiments, the trained unmasking status estimation engine includes a neural network.
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公开(公告)号：US20190195831A1
公开(公告)日：2019-06-27
申请号：US16287827
申请日：2019-02-27
IPC分类号： G01N29/07 , G01N1/30 , G01N33/483
CPC分类号： G01N29/024 , G01N1/30 , G01N29/07 , G01N29/4427 , G01N33/4833 , G01N2291/02466 , G01N2291/02475
摘要： A method for fixing a biological sample includes delivering energy through a biological sample that has been removed from a subject, while fixing the biological sample. A change in speed of the energy traveling through the biological sample is evaluated to monitor the progress of the fixation. A system for performing the method can include a transmitter that outputs the energy and a receiver configured to detect the transmitted energy. A computing device can evaluate the speed of the energy based on signals from the receiver.
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公开(公告)号：US20170336303A1
公开(公告)日：2017-11-23
申请号：US15660868
申请日：2017-07-26
发明人： David Chafin , Michael Otter
IPC分类号： G01N1/30 , G01N33/574 , C12Q1/68
CPC分类号： G01N1/30 , C12Q1/6886 , C12Q2600/106 , C12Q2600/118 , C12Q2600/178 , G01N33/574 , G01N2001/305 , G01N2440/14
摘要： An extended tissue fixation method is provided including at least one soak in a cold aldehyde-based fixative solution followed by a soak in a warm aldehyde-based fixative solution over a period greater than 2 days. Using the processes disclosed herein, improved tissue morphology and IHC staining as well as superior preservation of post-translation modification signals, e.g. biomarkers, have been accomplished relative to standard room temperature fixation protocols. Moreover, the tissue can be left in the fixative solution up to at least 14 days using these methods, which provides improved flexibility relative to other protocols, enabling fixation to be conducted during transportation, shipping, and over weekends or vacations, while still achieving acceptable staining results.
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公开(公告)号：US20130224791A1
公开(公告)日：2013-08-29
申请号：US13843828
申请日：2013-03-15
IPC分类号： G01N1/30
CPC分类号： G01N1/30 , G01N1/31 , G01N29/07 , G01N29/4418 , G01N2291/02475 , G01N2291/02491
摘要： A tissue sample that has been removed from a subject can be evaluated. A change in speed of the energy traveling through the sample is evaluated to monitor changes in the biological sample during processing. The monitoring can detect movement of fluid with the sample and cross-linking. A system for performing the method can include a transmitter that outputs the energy and a receiver configured to detect the transmitted energy.
摘要翻译： 可以评估已经从受试者中除去的组织样品。 评估通过样品的能量的速度变化来监测处理过程中生物样品的变化。 监测可以检测流体与样品和交联的运动。 用于执行该方法的系统可以包括输出能量的发射机和被配置为检测发射能量的接收机。
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10.发明申请公开(公告)号：US20220136971A1
公开(公告)日：2022-05-05
申请号：US17577604
申请日：2022-01-18
发明人： Daniel Bauer , David Chafin
IPC分类号： G01N21/65 , G01N21/3563 , G01N21/39 , G01N33/483 , G06N3/08
摘要： The present disclosure relates to automated systems (200) and methods for quantitatively determining a fixation duration of a biological specimen using a trained fixation estimation engine (210). In some embodiments, the trained fixation estimation (210) engine includes a neural network. In some embodiments, the trained fixation estimation (210) engine includes a supervised classifier.
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