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公开(公告)号：US20140031251A1
公开(公告)日：2014-01-30
申请号：US13883478
申请日：2011-11-02
申请人： Timothy Yeatman , Andrey Loboda , Michael Nebozhyn , Hongyue Dai
发明人： Timothy Yeatman , Andrey Loboda , Michael Nebozhyn , Hongyue Dai
IPC分类号： C12Q1/68
CPC分类号： C12Q1/6886 , C12Q2600/106 , C12Q2600/112 , C12Q2600/118 , C12Q2600/158 , C12Q2600/178
摘要： In one aspect, methods, markers, and expression signatures are disclosed for assessing the degree to which a cell sample has epithelial cell-like properties or mesenchymal cell-like properties. In another aspect, methods are provided for predicting cancer patient prognosis based on whether the cancer is classified as having a high or low EMT Signature Score.
摘要翻译： 一方面，公开了用于评估细胞样品具有上皮细胞样特性或间充质细胞样特性的程度的方法，标记和表达特征。 在另一方面，提供了用于基于癌症是否被分类为具有高或低EMT签名评分来预测癌症患者预后的方法。
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2.发明授权公开(公告)号：US08175896B2
公开(公告)日：2012-05-08
申请号：US13205536
申请日：2011-08-08
申请人： William S. Dalton , Timothy Yeatman
发明人： William S. Dalton , Timothy Yeatman
摘要： Computers, computer program products, and methods for identifying a plurality of subjects for a clinical trial are provided. A candidate set of molecular profiles in a stored plurality of molecular profiles are identified. Each such profile has measurements for a discriminating set of cellular constituents that match the measurements of corresponding cellular constituents in a responder set of biological samples, thereby identifying the plurality of subjects for the trial from those subjects from which the candidate set of molecular profiles were derived. Each respective molecular profile in the stored plurality of profiles has measurements of a plurality of cellular constituents from a respective biological sample in a plurality of samples obtained from a first plurality of subjects. The discriminating set of cellular constituents is identified from those cellular constituents in the plurality of cellular constituents whose measurement values discriminates between the responder and nonresponder sets of biological samples.
摘要翻译： 提供了计算机，计算机程序产品和用于识别用于临床试验的多个对象的方法。 鉴定存储的多个分子谱中的候选分子谱集。 每个这样的简档具有与生物样本的响应者组中的相应细胞成分的测量相匹配的细胞成分鉴别组的测量结果，从而从衍生出候选分子谱的集合的那些受试者中鉴定出试验的多个受试者 。 存储的多个轮廓中的每个相应分子轮廓具有来自从第一组多个受试者获得的多个样本中的相应生物样品的多个细胞成分的测量。 从多个细胞组分中的细胞成分鉴别细胞组分的鉴别集，其测量值区分应答者和生物样品的无应答组。
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公开(公告)号：US08095389B2
公开(公告)日：2012-01-10
申请号：US11879387
申请日：2007-07-16
申请人： William S. Dalton , Timothy Yeatman
发明人： William S. Dalton , Timothy Yeatman
摘要： Computers, computer program products, and methods for identifying a plurality of subjects for a clinical trial are provided. A candidate set of molecular profiles in a stored plurality of molecular profiles are identified. Each such profile has measurements for a discriminating set of cellular constituents that match the measurements of corresponding cellular constituents in a responder set of biological samples, thereby identifying the plurality of subjects for the trial from those subjects from which the candidate set of molecular profiles were derived. Each respective molecular profile in the stored plurality of profiles has measurements of a plurality of cellular constituents from a respective biological sample in a plurality of samples obtained from a first plurality of subjects. The discriminating set of cellular constituents is identified from those cellular constituents in the plurality of cellular constituents whose measurement values discriminates between the responder and nonresponder sets of biological samples.
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公开(公告)号：US20060195269A1
公开(公告)日：2006-08-31
申请号：US11134688
申请日：2005-05-19
申请人： Timothy Yeatman , Steven Eschrich , Gregory Bloom
发明人： Timothy Yeatman , Steven Eschrich , Gregory Bloom
IPC分类号： G06F19/00
CPC分类号： G06F19/20 , C12Q1/6886 , C12Q2600/106 , C12Q2600/118 , G06F19/24
摘要： The invention provides a molecular marker set that can be used for prognosis of colorectal cancer in a colorectal cancer patient. The invention also provides methods and computer systems for evaluating prognosis of colorectal cancer in a colorectal cancer patient based on the molecular marker set. The invention also provides methods and computer systems for determining chemotherapy for a colorectal cancer patient and for enrolling patients in clinical trials.
摘要翻译： 本发明提供可用于结肠直肠癌患者结肠直肠癌预后的分子标记物。 本发明还提供了基于分子标记物组来评估结直肠癌患者的结肠直肠癌预后的方法和计算机系统。 本发明还提供了用于确定结肠直肠癌患者的化学疗法的方法和计算机系统，并且用于在临床试验中招募患者。
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公开(公告)号：US20110046002A1
公开(公告)日：2011-02-24
申请号：US12744027
申请日：2008-11-20
申请人： Timothy Yeatman , Dung-Tsa Chen , Aejaz Nasir
发明人： Timothy Yeatman , Dung-Tsa Chen , Aejaz Nasir
CPC分类号： C12Q1/6886 , C12Q2600/118 , C12Q2600/158
摘要： The invention provides a molecular marker set that can be used for prognosis of breast cancer in a patient using histologically normal tissue. The invention also provides methods for evaluating prognosis of breast cancer in a patient based on a molecular molecular signature.
摘要翻译： 本发明提供了可以用于使用组织学正常组织的患者乳腺癌预后的分子标记物组。 本发明还提供了基于分子分子特征评估患者乳腺癌预后的方法。
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公开(公告)号：US20100240540A1
公开(公告)日：2010-09-23
申请号：US12728840
申请日：2010-03-22
IPC分类号： C40B30/00
CPC分类号： C12Q1/6886 , C12Q2600/118 , C12Q2600/158
摘要： Actively dividing tumors appear to progress to a life threatening condition more rapidly than slowly dividing tumors. Assessing actively dividing tumors currently involves a manual assessment of the number of mitotic cells in a histological slide prepared from the tumor and assessed by a trained pathologist. Disclosed is a method for using cumulative information from a series of expressed genes to determine tumor prognosis. This cumulative information can be used to categorize tumor samples into high mitotic states or low mitotic states using a mathematical algorithm and gene expression data derived from microarrays or quantitative-Polymerase Chain Reaction (Q-PCR) data. The specific mathematical description outlines how the algorithm assesses the most informative subset of genes from the full list of genes during the assessment of each sample.
摘要翻译： 与慢慢分裂的肿瘤相比，积极分裂的肿瘤似乎进展到危及生命的疾病。 目前，对积极分割肿瘤的评估包括手动评估从肿瘤制备的组织学载玻片中有丝分裂细胞的数量，并由训练有素的病理学家进行评估。 公开了一种使用来自一系列表达基因的累积信息来确定肿瘤预后的方法。 该累积信息可用于使用来自微阵列或定量聚合酶链反应（Q-PCR）数据的数学算法和基因表达数据将肿瘤样品分类为高有丝分裂状态或低有丝分裂状态。 具体的数学描述概述了在评估每个样本时，算法如何从基因的完整列表中评估基因的最有信息的子集。
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7.发明申请Identification of Novel Targets for Radio Sensitization Using a Genomic-Based Radiation Sensitivity Classifier 有权使用基于基因组的辐射灵敏度分类器识别无线电敏化的新目标公开(公告)号：US20050123945A1
公开(公告)日：2005-06-09
申请号：US10904326
申请日：2004-11-04
CPC分类号： G01N33/5005 , C12Q1/025 , G01N2500/00 , G01N2800/52
摘要： A classifier to predict cellular radiation sensitivity based on gene expression profiles in thirty-five cell lines from the NCI panel of 60 cancer cell lines (NCI-60), using a novel approach to predictive gene analysis. Three novel genes are provided, retinoblastoma binding protein 4 (RbAp48), G-protein signaling regulator 19 (RGS19) and ribose-5-phosphate isomerase A (R5PIA) whose expression values were correlated with radiation sensitivity.
摘要翻译： 一种基于60个癌细胞系（NCI-60）NCI组的三十五个细胞系中基因表达谱的细胞辐射敏感性分类器，采用新的预测基因分析方法。 提供三个新基因，其表达值与辐射敏感性相关，视网膜母细胞瘤结合蛋白4（RbAp48），G蛋白信号调节因子19（RGS19）和核糖-5-磷酸异构酶A（R5PIA）。
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8.发明申请公开(公告)号：US20110288890A1
公开(公告)日：2011-11-24
申请号：US13205536
申请日：2011-08-08
申请人： William S. Dalton , Timothy Yeatman
发明人： William S. Dalton , Timothy Yeatman
IPC分类号： G06Q50/00
摘要： Computers, computer program products, and methods for identifying a plurality of subjects for a clinical trial are provided. A candidate set of molecular profiles in a stored plurality of molecular profiles are identified. Each such profile has measurements for a discriminating set of cellular constituents that match the measurements of corresponding cellular constituents in a responder set of biological samples, thereby identifying the plurality of subjects for the trial from those subjects from which the candidate set of molecular profiles were derived. Each respective molecular profile in the stored plurality of profiles has measurements of a plurality of cellular constituents from a respective biological sample in a plurality of samples obtained from a first plurality of subjects. The discriminating set of cellular constituents is identified from those cellular constituents in the plurality of cellular constituents whose measurement values discriminates between the responder and nonresponder sets of biological samples.
摘要翻译： 提供了计算机，计算机程序产品和用于识别用于临床试验的多个对象的方法。 鉴定存储的多个分子谱中的候选分子谱集。 每个这样的简档具有与生物样本的响应者组中的相应细胞成分的测量相匹配的细胞成分鉴别组的测量结果，从而从衍生出候选分子谱的集合的那些受试者中鉴定出试验的多个受试者 。 存储的多个轮廓中的每个相应分子轮廓具有来自从第一组多个受试者获得的多个样本中的相应生物样品的多个细胞成分的测量。 从多个细胞组分中的细胞成分鉴别细胞组分的鉴别集，其测量值区分应答者和生物样品的无应答组。
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9.发明申请公开(公告)号：US20080033658A1
公开(公告)日：2008-02-07
申请号：US11879387
申请日：2007-07-16
申请人： William Dalton , Timothy Yeatman
发明人： William Dalton , Timothy Yeatman
IPC分类号： G06F19/00
摘要： Computers, computer program products, and methods for identifying a plurality of subjects for a clinical trial are provided. A candidate set of molecular profiles in a stored plurality of molecular profiles are identified. Each such profile has measurements for a discriminating set of cellular constituents that match the measurements of corresponding cellular constituents in a responder set of biological samples, thereby identifying the plurality of subjects for the trial from those subjects from which the candidate set of molecular profiles were derived. Each respective molecular profile in the stored plurality of profiles has measurements of a plurality of cellular constituents from a respective biological sample in a plurality of samples obtained from a first plurality of subjects. The discriminating set of cellular constituents is identified from those cellular constituents in the plurality of cellular constituents whose measurement values discriminates between the responder and nonresponder sets of biological samples.
摘要翻译： 提供了计算机，计算机程序产品和用于识别用于临床试验的多个对象的方法。 鉴定存储的多个分子谱中的候选分子谱集。 每个这样的简档具有与生物样本的响应者组中的相应细胞成分的测量相匹配的细胞成分鉴别组的测量结果，从而从衍生出候选分子谱的集合的那些受试者中鉴定出试验的多个受试者 。 存储的多个轮廓中的每个相应分子轮廓具有来自从第一组多个受试者获得的多个样本中的相应生物样品的多个细胞成分的测量。 从多个细胞组分中的细胞成分鉴别细胞组分的鉴别集，其测量值区分应答者和生物样品的无应答组。
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10.发明申请公开(公告)号：US20060195266A1
公开(公告)日：2006-08-31
申请号：US11065794
申请日：2005-02-25
申请人： Timothy Yeatman
发明人： Timothy Yeatman
IPC分类号： G06F19/00
CPC分类号： G16B25/00 , C12Q1/6886 , C12Q2600/106 , C12Q2600/118 , G16B40/00
摘要： The present invention pertains to specific gene signatures for cancer that are used to predict survival and novel processes for identifying such gene signatures. In one embodiment, gene signatures for human colorectal cancer are identified and outcomes are linked to the specific gene signatures using significance analysis of microarrays (SAM) and support vector machines (SVM) to provide a prognosis/survival classifier.
摘要翻译： 本发明涉及用于预测存活的癌症的特异性基因特征以及鉴定这种基因特征的新方法。 在一个实施方案中，使用微阵列（SAM）和支持向量机（SVM）的显着性分析来鉴定人结肠直肠癌的基因特征，并将结果与特定基因特征相关联，以提供预后/生存分类器。
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