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    Classification of breast cancer patients using a combination of clinical criteria and informative genesets
    1.
    发明授权
    Classification of breast cancer patients using a combination of clinical criteria and informative genesets 失效
    乳腺癌患者使用临床标准和信息基因组合的分类

    公开(公告)号：US08019552B2

    公开(公告)日：2011-09-13

    申请号：US10591800

    申请日：2005-03-07

    申请人： Hongyue Dai ,  Laura J. Van't Veer ,  John Lamb ,  Roland Stoughton ,  Stephen H. Friend ,  Yudong He

    发明人： Hongyue Dai ,  Laura J. Van't Veer ,  John Lamb ,  Roland Stoughton ,  Stephen H. Friend ,  Yudong He

    IPC分类号： G01N33/48 ,  G01N33/50

    CPC分类号： G01N33/57415 ,  C12Q1/6886 ,  C12Q2600/106 ,  C12Q2600/112 ,  C12Q2600/118 ,  Y10T436/143333

    摘要： The present invention provides prognostic methods for conditions such as cancer, for example, breast cancer, comprising classifying an individual by a plurality of phenotypic, genotypic or clinical characteristics of the condition into a plurality of patient subsets, and analyzing the pattern of expression of prognosis-informative genes identified for that subset in a sample from the individual. The present invention also provides methods for constructing such patient subsets and of identifying prognosis-informative genesets for such subsets. The invention further provides methods of assigning a therapeutic regimen to an individual, microarrays useful for performing prognosis, kits comprising these microarrays, and computer systems and programs for implementing the methods of the invention.

    摘要翻译： 本发明提供了诸如癌症例如乳腺癌的病症的预后方法，包括将个体的多个表型，基因型或临床特征分类为多个患者子集，并分析预后表达模式 在来自个体的样品中识别该子集的信息基因。 本发明还提供了用于构建这样的患者子集以及鉴定这样的子集的预后信息性基因组的方法。 本发明进一步提供了将个体的治疗方案分配给用于进行预后的微阵列，包括这些微阵列的试剂盒以及用于实施本发明的方法的计算机系统和程序的方法。

    Classification of Breast Cancer Patients Using a Combination of Clinical Criteria and Informative Genesets
    2.
    发明申请
    Classification of Breast Cancer Patients Using a Combination of Clinical Criteria and Informative Genesets 失效
    乳腺癌患者使用临床标准和信息基因组合的分类

    公开(公告)号：US20080187909A1

    公开(公告)日：2008-08-07

    申请号：US10591800

    申请日：2005-03-07

    申请人： Hongyue Dai ,  Laura J. Van't Veer ,  John Lamb ,  Roland Stoughton ,  Stephen H. Friend ,  Yudong He

    发明人： Hongyue Dai ,  Laura J. Van't Veer ,  John Lamb ,  Roland Stoughton ,  Stephen H. Friend ,  Yudong He

    IPC分类号： C12Q1/68 ,  C40B40/06

    CPC分类号： G01N33/57415 ,  C12Q1/6886 ,  C12Q2600/106 ,  C12Q2600/112 ,  C12Q2600/118 ,  Y10T436/143333

    摘要： The present invention provides prognostic methods for conditions such as cancer, for example, breast cancer, comprising classifying an individual by a plurality of phenotypic, genotypic or clinical characteristics of the condition into a plurality of patient subsets, and analyzing the pattern of expression of prognosis-informative genes identified for that subset in a sample from the individual. The present invention also provides methods for constructing such patient subsets and of identifying prognosis-informative genesets for such subsets. The invention further provides methods of assigning a therapeutic regimen to an individual, microarrays useful for performing prognosis, kits comprising these microarrays, and computer systems and programs for implementing the methods of the invention.

    摘要翻译： 本发明提供了诸如癌症例如乳腺癌的病症的预后方法，包括将个体的多个表型，基因型或临床特征分类为多个患者子集，并分析预后表达模式 在来自个体的样品中识别该子集的信息基因。 本发明还提供了用于构建这样的患者子集以及鉴定这样的子集的预后信息性基因组的方法。 本发明进一步提供了将个体的治疗方案分配给用于进行预后的微阵列，包括这些微阵列的试剂盒以及用于实施本发明的方法的计算机系统和程序的方法。

    Methods for diagnosis and/or prognosis of colon cancer
    3.
    发明授权
    Methods for diagnosis and/or prognosis of colon cancer 失效
    结肠癌诊断和/或预后的方法

    公开(公告)号：US08105777B1

    公开(公告)日：2012-01-31

    申请号：US12370264

    申请日：2009-02-12

    申请人： Hongyue Dai ,  Laura J. Van't Veer ,  Yudong He

    发明人： Hongyue Dai ,  Laura J. Van't Veer ,  Yudong He

    IPC分类号： C12Q1/68

    CPC分类号： C12Q1/6886 ,  C12Q2600/118 ,  C12Q2600/158

    摘要： The present invention relates to genetic markers whose expression is correlated with colon cancer. In one aspect, the invention provides sets of markers whose expression can be used for classifying colon cancer patients into different prognostic categories. In another aspect, the invention provides kits containing marker sets for determining prognosis of colon cancer. In another aspect, the invention provides methods of classifying cancer patients with regard to prognosis.

    摘要翻译： 本发明涉及其表达与结肠癌相关的遗传标记。 一方面，本发明提供了一组标志物，其表达可用于将结肠癌患者分类为不同的预后类别。 另一方面，本发明提供了包含用于确定结肠癌预后的标记物组的试剂盒。 另一方面，本发明提供了关于预后的癌症患者分类方法。

    Methods for characterizing tissue or organ condition or status
    6.
    发明申请
    Methods for characterizing tissue or organ condition or status 审中-公开
    表征组织或器官状况或状态的方法

    公开(公告)号：US20050143628A1

    公开(公告)日：2005-06-30

    申请号：US10872157

    申请日：2004-06-17

    申请人： Xudong Dai ,  Yudong He ,  Hongyue Dai ,  Roger Ulrich ,  Jeffrey Waring

    发明人： Xudong Dai ,  Yudong He ,  Hongyue Dai ,  Roger Ulrich ,  Jeffrey Waring

    IPC分类号： A61B5/00 ,  G01N33/567 ,  G06F19/00 ,  G01N33/48 ,  G01N33/50

    CPC分类号： G01N33/567 ,  A61B5/00 ,  A61B5/416 ,  A61B5/726 ,  A61B5/7267 ,  G01N2500/00 ,  G16B40/00

    摘要： The invention provides methods for characterizing the condition or status of a tissue or organ in a multicellular organism, e.g., an animal, by combining a plurality of clinical measures are combined into a composite clinical score (CCS) and using such a CCS to represent the condition or status of the tissue or organ. The invention provides methods for predicting the condition or status of a tissue or organ in a multicellular organism, e.g., an animal, based on measurements of a set of cellular constituent markers, e.g., measured expression levels of a set of marker genes. The invention also provides methods for selecting the set of marker genes whose expression levels can be used in determining the CCS.

    摘要翻译： 本发明提供用于表征多细胞生物（例如动物）中的组织或器官的状况或状态的方法，通过组合多个临床措施组合成复合临床评分（CCS）并使用这样的CCS来表示 条件或状态。 本发明提供了用于基于一组细胞构成标志物的测量，例如一组标记基因的测量的表达水平来预测多细胞生物体（例如动物）中的组织或器官的状态或状态的方法。 本发明还提供了用于选择其表达水平可以用于确定CCS的标记基因的集合的方法。

    Methods and compositions for utilizing changes of hybridization signals during approach to equilibrium
    7.
    发明申请
    Methods and compositions for utilizing changes of hybridization signals during approach to equilibrium 审中-公开
    在平衡过程中利用杂交信号变化的方法和组合物

    公开(公告)号：US20050033520A1

    公开(公告)日：2005-02-10

    申请号：US10475960

    申请日：2002-04-24

    申请人： Hongyue Dai ,  Michael Meyer ,  Roland Stoughton

    发明人： Hongyue Dai ,  Michael Meyer ,  Roland Stoughton

    IPC分类号： C12Q1/68 ,  G06F19/20 ,  G06F19/00

    CPC分类号： C12Q1/6816 ,  C12Q1/6837 ,  G16B25/00 ,  C12Q2527/113

    摘要： The present invention provides methods for utilizing the changes of hybridization levels in time during approach to equilibrium duplex formation for identifying specific hybridization to polynucleotide probes. In the invention, the changes of hybridization levels at one or more polynucleotide probes by a sample comprising a plurality of nucleic acid molecules having different sequences are monitored during their progress towards equilibrium and the continuing increase of hybridization signals beyond cross-hybridization is used as an indication of specific binding. The invention also provides methods of comparing specificities of different polynucleotides probes. The invention further provides methods for ranking and selecting polynucleotide probes that are specific to particular nucleic acids and methods for enhancing the detection of nucleic acids. The invention further provides methods for determining the orientation of nucleotide sequences.

    摘要翻译： 本发明提供了在平衡双相形成过程中利用杂交水平随时间变化的方法，用于鉴定与多核苷酸探针的特异性杂交。 在本发明中，在包含具有不同序列的多个核酸分子的样品的一个或多个多核苷酸探针处的杂交水平的变化在其进展到平衡期间被监测，并且超越交叉杂交的杂交信号的持续增加用作 指示具体绑定。 本发明还提供了比较不同多核苷酸探针的特异性的方法。 本发明还提供了用于评估和选择对特定核酸特异性的多核苷酸探针的方法和用于增强核酸检测的方法。 本发明还提供了确定核苷酸序列取向的方法。

    Systems and methods for evaluating the significance of differences in biological measurements
    9.
    发明授权
    Systems and methods for evaluating the significance of differences in biological measurements 失效
    用于评估生物测量差异意义的系统和方法

    公开(公告)号：US07565251B2

    公开(公告)日：2009-07-21

    申请号：US11303121

    申请日：2005-12-12

    申请人： Roland Stoughton ,  Hongyue Dai

    发明人： Roland Stoughton ,  Hongyue Dai

    IPC分类号： G01N33/50

    CPC分类号： G06F19/20 ,  C12Q1/6837 ,  Y10T436/10

    摘要： A method for fluorophore bias removal in microarray experiments in which the fluorophores used in microarray experiment pairs are reversed. Further, a method for calculating the individual errors associated with each measurement made in nominally repeated microarray experiments. This error measurement is optionally coupled with rank based methods in order to determine a probability that a cellular constituent is up or down regulated in response to a perturbation. Finally, a method for determining the confidence in the weighted average of the expression level of a cellular constituent in nominally repeated microarray experiments.

    摘要翻译： 用于微阵列实验对中的荧光团的微阵列实验中的荧光团偏置去除方法是相反的。 此外，一种用于计算与名义上重复的微阵列实验中进行的每个测量相关联的各个错误的方法。 该误差测量可选地与基于秩的方法耦合，以便确定响应于扰动的细胞成分向上或向下调节的概率。 最后，在名义上重复的微阵列实验中确定细胞成分的表达水平的加权平均的置信度的方法。

    Systems and methods for evaluating the significance of differences in biological measurements
    10.
    发明申请
    Systems and methods for evaluating the significance of differences in biological measurements 失效

    公开(公告)号：US20060190191A1

    公开(公告)日：2006-08-24

    申请号：US11303121

    申请日：2005-12-12

    申请人： Roland Stoughton ,  Hongyue Dai

    发明人： Roland Stoughton ,  Hongyue Dai

    IPC分类号： G06F19/00

    CPC分类号： G06F19/20 ,  C12Q1/6837 ,  Y10T436/10

    摘要： A method for fluorophore bias removal in microarray experiments in which the fluorophores used in microarray experiment pairs are reversed. Further, a method for calculating the individual errors associated with each measurement made in nominally repeated microarray experiments. This error measurement is optionally coupled with rank based methods in order to determine a probability that a cellular constituent is up or down regulated in response to a perturbation. Finally, a method for determining the confidence in the weighted average of the expression level of a cellular constituent in nominally repeated microarray experiments.