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1. 发明申请

WO2012168810A2 CROSS-MODAL APPLICATION OF COMBINATION SIGNATURES INDICATIVE OF A PHENOTYPE 审中-公开
标题翻译：组合标志的交叉模式应用
公开(公告)号：WO2012168810A2
公开(公告)日：2012-12-13
申请号：PCT/IB2012052551
申请日：2012-05-22
申请人： KONINKL PHILIPS ELECTRONICS NV , JANEVSKI ANGEL , KAMALAKARAN SITHARTHAN , BANERJEE NILANJANA , VARADAN VINAY , DIMITROVA NEVENKA , SURYANARAYANAN SANKARARAMAN
发明人： JANEVSKI ANGEL , KAMALAKARAN SITHARTHAN , BANERJEE NILANJANA , VARADAN VINAY , DIMITROVA NEVENKA , SURYANARAYANAN SANKARARAMAN
IPC分类号： G06F19/18
CPC分类号： G06F19/18
摘要： The present invention relates to a method of adapting a composite signature of a phenotype. The method comprises the steps of providing for a composite signature of a phenotype with at least two different data types, which were respectively generated by two different modalities of measuring a specimen. Due to an adaption of one part of the signature of the phenotype the resulting adapted phenotype signature can be used as an input for a signature evaluation tool that was derived from data measured by a third modality of measurement.
摘要翻译：本发明涉及一种适应表型复合特征的方法。该方法包括以下步骤：提供具有至少两种不同数据类型的表型的复合特征，其分别由测量样本的两种不同方式产生。由于表型的一部分签名的适应，所得到的适应表型签名可以用作从通过第三测量方式测量的数据导出的签名评估工具的输入。

2. 发明申请

WO2012046191A3 IDENTIFICATION OF MULTI-MODAL ASSOCIATIONS BETWEEN BIOMEDICAL MARKERS 审中-公开
标题翻译：生物医学标记之间的多模式关联的鉴定
公开(公告)号：WO2012046191A3
公开(公告)日：2012-06-07
申请号：PCT/IB2011054366
申请日：2011-10-04
申请人： KONINKL PHILIPS ELECTRONICS NV , COLD SPRING HARBOR LAB , BANERJEE NILANJANA , JANEVSKI ANGEL , KAMALAKARAN SITHARTHAN , VARADAN VINAY , DIMITROVA NEVENKA , LUCITO ROBERT
发明人： BANERJEE NILANJANA , JANEVSKI ANGEL , KAMALAKARAN SITHARTHAN , VARADAN VINAY , DIMITROVA NEVENKA , LUCITO ROBERT
IPC分类号： G06F19/12
CPC分类号： G06F19/20 , G06F19/12 , G06F19/18
摘要： The present invention relates to a method for identifying multi-modal associations between biomedical markers which allows for the determination of network nodes and/or high ranking network members or combinations thereof, indicative of having a diagnostic, prognostic or predictive value for a medical condition, in particular ovarian cancer. The present invention further relates to a biomedical marker or group of biomedical markers associated with a high likelihood of responsiveness of a subject to a cancer therapy, preferably a platinum based cancer therapy, wherein said biomedical marker or group of biomedical markers comprises at least 1, 2, 3, 4, 5, 6, 7, 8, 9, 10, 11, 12, 13, 14, 15, 16, 17, 8, 19, 20 or all markers selected from PKMYT1, SKIL, RAB8A, HIRIP3, CTNNB1, NGFR, ZCCHC11, LSP1, CD200, PAX8, CYBRD1, HOXC11, TCEAL1, FZD10,FZD1, BBS4, IRS2, TLX3, TSPAN2, TXN, and CFLAR. Furthermore, an assay for detecting, diagnosing, graduating, monitoring or prognosticating a medical condition, or for detecting, 1 diagnosing, monitoring or prognosticating the responsiveness of a subject to a therapy against said medical condition, in particular ovarian cancer, is provided, as well as a corresponding method for classifying a subject comprising and a medical decision support system.
摘要翻译：本发明涉及一种用于识别生物医学标记之间的多模式关联的方法，其允许确定网络节点和/或高排名网络成员或其组合，指示具有医疗状况的诊断，预后或预测值，特别是卵巢癌。本发明进一步涉及与受试者对癌症疗法的响应性的高度可能性相关联的生物医学标记物或生物医学标记物组，其中所述生物医学标记物或生物医学标记物组包括至少1种， 1,2,3,4,5,6,7,8,9,10,11,12,13,14,15,16,17，8,19,20或所有选自PKMYT1，SKIL，RAB8A，HIRIP3， CTNNB1，NGFR，ZCCHC11，LSP1，CD200，PAX8，CYBRD1，HOXC11，TCEAL1，FZD10，FZD1，BBS4，IRS2，TLX3，TSPAN2，TXN和CFLAR。此外，提供了用于检测，诊断，分级，监测或预测医疗状况或用于检测，诊断，监测或预测受试者针对所述医疗状况，特别是卵巢癌的疗法的响应性的测定，作为以及用于分类包括医疗决策支持系统的对象的相应方法。

3. 发明申请

WO2012093363A3 INTEGRATED ACCESS TO AND INTERATION WITH MULTIPLICITY OF CLINICA DATA ANALYTIC MODULES 审中-公开
标题翻译：综合访问和与临床数据分析模块的多重性相关联
公开(公告)号：WO2012093363A3
公开(公告)日：2013-04-18
申请号：PCT/IB2012050041
申请日：2012-01-04
申请人： KONINKL PHILIPS ELECTRONICS NV , JANEVSKI ANGEL , KAMALAKARAN SITHARTHAN , REICHELT CHRISTIAN , BANERJEE NILANJANA , VARADAN VINAY , DIMITROVA NEVENKA
发明人： JANEVSKI ANGEL , KAMALAKARAN SITHARTHAN , REICHELT CHRISTIAN , BANERJEE NILANJANA , VARADAN VINAY , DIMITROVA NEVENKA
IPC分类号： G06F19/00
CPC分类号： G06F19/3443 , G06F19/325 , G16H40/63 , G16H50/70
摘要： A state machine (22) stores a current state (30) comprising a clinical context defined by available patient-related information relating to a medical patient, and identifies one or more available analytical tools of a set of analytical tools (24) that are applicable to the current state. A graphical user interface module (16) receives a user selection of an available analytical tool. The state machine loads patient-related information (40) to the user-selected available analytical tool (24sel) and invokes the user-selected available analytical tool to operate on the loaded patient-related information to generate additional patient-related information relating to the medical patient and/or graphical patient-related content relating to the medical patient. The state machine transitions from the current state (30) to a next state (30') and/or invokes the graphical user interface module to display the graphical patient related content.
摘要翻译：状态机（22）存储当前状态（30），其包括由与医疗患者有关的可用患者相关信息定义的临床上下文，并且识别可应用的一组分析工具（24）中的一个或多个可用分析工具到目前状态。图形用户界面模块（16）接收可用分析工具的用户选择。状态机将患者相关信息（40）加载到用户选择的可用分析工具（24sel），并且调用用户选择的可用分析工具对所加载的患者相关信息进行操作，以生成与患者相关的附加信息与患者有关的医疗病人和/或图形患者相关内容。状态机从当前状态（30）转换到下一状态（30'）和/或调用图形用户界面模块以显示图形的患者相关内容。

4. 发明申请

WO2012104764A2 METHOD FOR ESTIMATION OF INFORMATION FLOW IN BIOLOGICAL NETWORKS 审中-公开
标题翻译：生物网络信息流估计方法
公开(公告)号：WO2012104764A2
公开(公告)日：2012-08-09
申请号：PCT/IB2012050405
申请日：2012-01-30
申请人： KONINKL PHILIPS ELECTRONICS NV , VARADAN VINAY , MITTAL PRATEEK , KAMALAKARAN SITHARTHAN , DIMITROVA NEVENKA , JANEVSKI ANGEL , BANERJEE NIIANJANA
发明人： VARADAN VINAY , MITTAL PRATEEK , KAMALAKARAN SITHARTHAN , DIMITROVA NEVENKA , JANEVSKI ANGEL , BANERJEE NIIANJANA
IPC分类号： G06F19/12
CPC分类号： G06F19/324 , G06F19/12 , G06F19/20 , G06F19/24
摘要： The present invention relates to a method for stratifying a patient into a clinically relevant group comprising the identification of the probability of an alteration within one or more sets of molecular data from a patient sample in comparison to a database of molecular data of known phenotypes, the inference of the activity of a biological network on the basis of the probabilities, the identification of a network information flow probability for the patient via the probability of interactions in the network, the creation of multiple instances of network information flow for the patient sample and the calculation of the distance of the patient from other subjects in a patient database using multiple instances of the network information flow. The invention further relates to a biomedical marker or group of biomedical markers associated with a high likelihood of responsiveness of a subject to a cancer therapy wherein the biomedical marker or group of biomedical markers comprises altered biological pathway markers, as well as to an assay for detecting, diagnosing, graduating, monitoring or prognosticating a medical condition, or for detecting, diagnosing, monitoring or prognosticating the responsiveness of a subject to a therapy against said medical condition, in particular ovarian cancer. Furthermore, a corresponding clinical decision support system is provided.
摘要翻译：本发明涉及一种用于将患者分层为临床相关组的方法，其包括鉴定来自患者样品的一组或多组分子数据内的改变概率与已知表型的分子数据的数据库相比较，基于概率推断生物网络的活动，通过网络中的交互概率识别患者的网络信息流概率，创建患者样本的多个网络信息流实例和使用网络信息流的多个实例来计算患者与患者数据库中的其他受试者的距离。本发明进一步涉及生物医学标记物或生物医学标记物组，其与受试者对癌症治疗的响应性的高可能性相关联，其中生物医学标记物或生物医学标记物组包括改变的生物学途径标记物，以及用于检测，诊断，毕业，监测或预测医学状况，或用于检测，诊断，监测或预测受试者对于针对所述医学病症，特别是卵巢癌的治疗的反应性。此外，提供了相应的临床决策支持系统。

5. 发明申请

WO2010055487A3 COMPOSITIONS AND METHODS FOR MICRO-RNA EXPESSION PROFILING OF COLORECTAL CANCER 审中-公开
标题翻译：大肠癌微RNA表达谱的组成和方法
公开(公告)号：WO2010055487A3
公开(公告)日：2010-09-30
申请号：PCT/IB2009055057
申请日：2009-11-13
申请人： KONINKL PHILIPS ELECTRONICS NV , WU YING , ZHU HONGGUANG , LI JIAN , XU LIANG , VERHAEGH WILHELMUS F J , REN YIPING , JANEVSKI ANGEL , VARADAN VINAY , LI ZHAOYONG , DIMITROVA NEVENKA
发明人： WU YING , ZHU HONGGUANG , LI JIAN , XU LIANG , VERHAEGH WILHELMUS F J , REN YIPING , JANEVSKI ANGEL , VARADAN VINAY , LI ZHAOYONG , DIMITROVA NEVENKA
IPC分类号： C12Q1/68
CPC分类号： C12N15/111 , C12N2310/141 , C12N2320/10 , C12N2330/10 , C12N2330/31 , C12Q1/6816 , C12Q1/6886 , C12Q2600/158 , C12Q2600/178
摘要： The present invention relates compositions and methods for microRNA (miRNA) expression profiling of colorectal cancer. In particular, the invention relates to a diagnostic kit of molecular markers for identifying one or more mammalian target cells exhibiting or having a predisposition to develop colorectal cancer, the kit comprising a plurality of nucleic acid molecules, each nucleic acid molecule encoding a miRNA sequence, wherein one or more of the plurality of nucleic acid molecules are differentially expressed in the target cells and in one or more control cells, and wherein the one or more differentially expressed nucleic acid molecules together represent a nucleic acid expression signature that is indicative for the presence of or the predisposition to develop colorectal cancer. The invention further relates to corresponding methods using such nucleic acid expression signatures for identifying one or more mammalian target cells exhibiting or having a predisposition to develop colorectal cancer as well as for preventing or treating such a condition. Finally, the invention is directed to a pharmaceutical composition for the prevention and/or treatment of colorectal cancer.
摘要翻译：本发明涉及用于结直肠癌的微RNA（miRNA）表达谱分析的组合物和方法。具体而言，本发明涉及分子标记的诊断试剂盒，用于鉴定展现或具有发展结肠直肠癌倾向的一种或多种哺乳动物靶细胞，所述试剂盒包含多个核酸分子，每个核酸分子编码miRNA序列，其中所述多种核酸分子中的一种或多种在所述靶细胞和一种或多种对照细胞中差异表达，并且其中所述一种或多种差异表达的核酸分子一起表示核酸表达签名，或发展大肠癌的倾向。本发明进一步涉及使用此类核酸表达签名鉴定一种或多种哺乳动物靶细胞的相应方法，所述一种或多种哺乳动物靶细胞展现或具有发展结肠直肠癌的倾向以及用于预防或治疗这样的状况。最后，本发明涉及用于预防和/或治疗结肠直肠癌的药物组合物。

6. 发明申请

WO2011036604A3 METHOD AND COMPOSITIONS FOR ASSISTING IN DIAGNOSING AND/OR MONITORING BREAST CANCER PROGRESSION 审中-公开
标题翻译：辅助诊断和/或监测乳腺癌进展的方法和组合
公开(公告)号：WO2011036604A3
公开(公告)日：2011-06-16
申请号：PCT/IB2010054152
申请日：2010-09-15
申请人： KONINKL PHILIPS ELECTRONICS NV , COLD SPRING HARBOR LAB , VARADAN VINAY , KAMALAKARAN SITHARTHAN , HICKS JAMES B
发明人： VARADAN VINAY , KAMALAKARAN SITHARTHAN , HICKS JAMES B
IPC分类号： C12Q1/68
CPC分类号： C12Q1/6827 , C12Q1/6813 , C12Q1/6834 , C12Q1/6886 , C12Q2600/118 , C12Q2600/154 , C12Q2537/164 , C12Q2521/331 , C12Q2523/125
摘要： The present invention relates to a method for assisting in diagnosing breast cancer and/or monitoring breast cancer progression in a given sample based on the analysis of differential DNA methylation patterns. More particularly, the method is directed to the identification of one or more epigenetic markers that derive from the application of a variety of statistical methods in order to point out the prognostic significance of the difference in methylation states at one or more genomic loci and predict whether the sample analyzed has a good or bad prognosis following treatment.
摘要翻译：本发明涉及一种基于差异DNA甲基化模式的分析，帮助诊断乳腺癌和/或监测给定样品中的乳腺癌进展的方法。更具体地说，该方法涉及从应用多种统计学方法得出的一种或多种表观遗传标记物的鉴定，以便指出在一个或多个基因组基因座上的甲基化状态差异的预后意义，并预测是否分析的样本治疗后预后良好。

7. 发明申请

WO2010073218A3 METHYLATION BIOMARKERS FOR PREDICTING RELAPSE FREE SURVIVAL 审中-公开
标题翻译：甲基化生物标志物用于预测免疫生存
公开(公告)号：WO2010073218A3
公开(公告)日：2010-10-14
申请号：PCT/IB2009055909
申请日：2009-12-22
申请人： KONINKL PHILIPS ELECTRONICS NV , COLD SPRING HARBOR LAB , KAMALAKARAN SITHARTHAN , VARADAN VINAY , HICKS JAMES B
发明人： KAMALAKARAN SITHARTHAN , VARADAN VINAY , HICKS JAMES B
IPC分类号： C12Q1/68
CPC分类号： C12Q1/6886 , C12Q2600/118 , C12Q2600/154 , C12Q2600/156
摘要： A methylation classification list comprising loci DNA, for which loci the methylation status of the DNA is indicative of likelihood of recurrence of cancer, is provided. Furthermore, a method, apparatus and use for predicting probability of relapse free survival of a subject diagnosed with cancer, are provided.
摘要翻译：提供了包含基因座DNA的甲基化分类列表，其中基因座的DNA甲基化状态指示癌症复发的可能性。此外，提供了用于预测诊断患有癌症的受试者的无复发生存概率的方法，设备和用途。

8. 发明申请

WO2007134167A2 COMPUTATIONAL ANALYSIS OF THE SYNERGY AMONG MULTIPLE INTERACTING FACTORS 审中-公开
标题翻译：多个互动因素的协同作用的计算分析
公开(公告)号：WO2007134167A2
公开(公告)日：2007-11-22
申请号：PCT/US2007068666
申请日：2007-05-10
申请人： UNIV COLUMBIA , ANASTASSIOU DIMITRIS , VARADAN VINAY
发明人： ANASTASSIOU DIMITRIS , VARADAN VINAY
IPC分类号： E21B17/08
CPC分类号： C12Q1/6883 , C12Q2600/158
摘要： Systems and methods for selecting factors from a data set of measurements are provided. The measurements include values of factors and/or outcomes. Two or more factors that are jointly associated with one or more outcomes from the data set are identified. Each of the two or more factors are analyzed to determine at least one cooperative interaction among the factors with respect to an outcome. The two or more factors can be a module of factors.
摘要翻译：提供了用于从测量数据集中选择因子的系统和方法。测量值包括因素和/或结果的值。识别与数据集中的一个或多个结果联合关联的两个或多个因素。分析两个或更多个因素中的每一个以确定关于结果的因素之间的至少一个协作交互。两个或多个因素可以是一个因素的模块。

9. 发明申请

WO2007134167A9 COMPUTATIONAL ANALYSIS OF THE SYNERGY AMONG MULTIPLE INTERACTING FACTORS 审中-公开
标题翻译：多相互作用因子协同作用的计算分析
公开(公告)号：WO2007134167A9
公开(公告)日：2008-11-27
申请号：PCT/US2007068666
申请日：2007-05-10
申请人： UNIV COLUMBIA , ANASTASSIOU DIMITRIS , VARADAN VINAY
发明人： ANASTASSIOU DIMITRIS , VARADAN VINAY
IPC分类号： G01N33/48
CPC分类号： C12Q1/6883 , C12Q2600/158
摘要： Systems and methods for selecting factors from a data set of measurements are provided. The measurements include values of factors and/or outcomes. Two or more factors that are jointly associated with one or more outcomes from the data set are identified. Each of the two or more factors are analyzed to determine at least one cooperative interaction among the factors with respect to an outcome. The two or more factors can be a module of factors.
摘要翻译：提供了从测量数据集中选择因子的系统和方法。测量包括因素和/或结果的值。识别与数据集的一个或多个结果联合关联的两个或更多个因素。对两个或更多因素中的每一个进行分析以确定因素与结果之间的至少一个合作相互作用。这两个或更多因素可以是一个因素模块。

10. 发明申请

WO2007067956A3 SYSTEM AND METHOD FOR MULTIPLE-FACTOR SELECTION 审中-公开
标题翻译：多因素选择的系统与方法
公开(公告)号：WO2007067956A3
公开(公告)日：2008-04-03
申请号：PCT/US2006061749
申请日：2006-12-07
申请人： UNIV COLUMBIA , ANASTASSIOU DIMITRIS , VARADAN VINAY
发明人： ANASTASSIOU DIMITRIS , VARADAN VINAY
IPC分类号： G06F17/30 , C12Q1/68 , G06F19/00
CPC分类号： G06F19/24 , G06F19/20
摘要： The disclosed subject matter provides techniques for multiple-factor selection. The factors can be features or elements that are jointly associated with one or more outcomes by their joint presence or absence. There may be a non-causative correlation between the factors, features, or elements and the outcomes. In some embodiments, Entropy Minimization and Boolean Parsimony (EMBP) is used to identify modules of genes jointly associated with disease from gene expression data, and a logic function is provided to connect the combined expression levels in each gene module with the presence of disease. The smallest module of genes whose joint expression levels can predict the presence of disease can be identified.
摘要翻译：所公开的主题提供了多因素选择的技术。这些因素可以是通过其联合存在或不存在与一个或多个结果共同相关联的特征或元件。因素，特征或要素与结果之间可能存在非因果关系。在一些实施方案中，使用熵最小化和布尔参数（EMBP）来鉴定与基因表达数据共同与疾病相关联的基因的模块，并且提供逻辑功能以将每个基因模块中的组合表达水平与疾病的存在相关联。可以确定其联合表达水平可以预测疾病存在的最小的基因组。

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