公开(公告)号：WO2010086782A2

公开(公告)日：2010-08-05

申请号：PCT/IB2010/050316

申请日：2010-01-25

Applicant: KONINKLIJKE PHILIPS ELECTRONICS N.V. ,  COLD SPRING HARBOR LABORATORY ,  KAMALAKARAN, Sitharthan ,  JANEVSKI, Angel ,  HICKS, James, B.

Inventor： KAMALAKARAN, Sitharthan ,  JANEVSKI, Angel ,  HICKS, James, B.

IPC: C12Q1/68

CPC classification number: C12Q1/6886 ,  C12Q1/6827 ,  C12Q2600/112 ,  C12Q2600/154 ,  Y10T436/143333 ,  C12Q2537/165

Abstract: Provided is a method for the analysis of breast cancer disorders, comprising determining the genomic methylation status of one or more CpG dinucleotides. Furthermore, a computer program product stored on a computer-readable medium comprising software code adapted to perform the steps of the method when executed on a data-processing apparatus is provided. A device comprising means for supporting a clinician is also provided.

Abstract translation: 提供了一种用于分析乳腺癌疾病的方法，包括测定一种或多种CpG二核苷酸的基因组甲基化状态。 此外，提供了存储在计算机可读介质上的计算机程序产品，其包括适于在数据处理装置上执行时执行所述方法的步骤的软件代码。 还提供了一种包括用于支撑临床医生的装置的装置。

公开(公告)号：WO2004062591A2

公开(公告)日：2004-07-29

申请号：PCT/US2004/000320

申请日：2004-01-06

Applicant: OREGON HEALTH AND SCIENCE UNIVERSITY ,  MOSES, Ashlee ,  FRUH, Klaus ,  KING, Jeffrey, S. ,  HICKS, James, B. ,  RAGGO, Camilo ,  NELSON, Jay

Inventor： MOSES, Ashlee ,  FRUH, Klaus ,  KING, Jeffrey, S. ,  HICKS, James, B. ,  RAGGO, Camilo ,  NELSON, Jay

IPC: A61K

CPC classification number: A01K67/0271 ,  A01K2227/105 ,  A01K2267/0331 ,  A01K2267/0337 ,  C12N15/111 ,  C12N15/113 ,  C12N2310/11 ,  C12N2310/14 ,  C12N2320/12 ,  C12Q1/6886 ,  C12Q1/705 ,  C12Q2600/136 ,  C12Q2600/158

Abstract: The present invention uses gene expression profiling, and gene silencing methods to identify and provide a plurality of 'validated' KSHV-induced cellular gene sequences and pathways useful as targets for modulation of KSHV-mediated effects on cellular proliferation and phenotype (e.g., cancer) associated with latent and lytic phases of the Kaposi's sarcoma-associated herpesvirus (KSHV; Human herpesvirus 8; HHV8) life cycle. Particular embodiments provide therapeutic compositions, and methods for modulation of KSHV infection or KSHV-mediated effects on cellular proliferation and phenotype, comprising inhibition of KSHV-induced gene sequences. Additional embodiments provide screening assays for compounds useful to modulate KSHV infection or KSHV-mediated effects on cellular proliferation and phenotype. Further embodiments provide diagnostic and/or prognostic assays for KSHV infection.

Abstract translation: 本发明使用基因表达谱和基因沉默方法来鉴定并提供多个“验证的”KSHV诱导的细胞基因序列和途径，其可用作调节KSHV介导的对细胞增殖和表型（例如癌症）的作用的靶标， 与卡波西肉瘤相关疱疹病毒（KSHV;人类疱疹病毒8; HHV8）生命周期的潜伏和溶解期相关。 具体实施方案提供用于调节KSHV感染或KSHV介导的对细胞增殖和表型的影响的治疗组合物和方法，包括KSHV诱导的基因序列的抑制。 另外的实施方案提供了用于调节KSHV感染或KSHV介导的细胞增殖和表型效应的化合物的筛选测定。 其他实施方案提供用于KSHV感染的诊断和/或预后测定。

公开(公告)号：WO2008016374A8

公开(公告)日：2008-07-17

申请号：PCT/US2006047913

申请日：2006-12-14

Applicant: COLD SPRING HARBOR LAB ,  WIGLER MICHAEL H ,  HICKS JAMES B ,  KRASNITZ ALEXANDER ,  ZETTERBERG ANDERS P

Inventor： HICKS JAMES B ,  KRASNITZ ALEXANDER ,  ZETTERBERG ANDERS P

IPC: C12Q1/68 ,  G06F19/00 ,  G06F19/18 ,  G06F19/20

CPC classification number: G06F19/345 ,  C12Q1/6883 ,  C12Q1/6886 ,  C12Q2600/112 ,  C12Q2600/118 ,  C12Q2600/178 ,  G06F19/18 ,  G06F19/20 ,  G06F19/22 ,  G06F19/34 ,  G16H50/20 ,  G16H50/70

Abstract: The present invention provides methods and compositions related to genomic profiling, and in particular, to assigning probabilistic measure of clinical outcome for a patient having a disease or a tumor using segmented genomic profiles such as those produced by representational oligonucleotide microarray analysis (ROMA).

公开(公告)号：WO2008016374A2

公开(公告)日：2008-02-07

申请号：PCT/US2006/047913

申请日：2006-12-14

Applicant: COLD SPRING HARBOR LABORATORY ,  WIGLER, Michael H. ,  HICKS, James B. ,  KRASNITZ, Alexander ,  ZETTERBERG, Anders P.

Inventor： HICKS, James B. ,  KRASNITZ, Alexander ,  ZETTERBERG, Anders P.

IPC: C12Q1/68

CPC classification number: G06F19/345 ,  C12Q1/6883 ,  C12Q1/6886 ,  C12Q2600/112 ,  C12Q2600/118 ,  C12Q2600/178 ,  G06F19/00 ,  G06F19/18 ,  G06F19/20 ,  G06F19/22 ,  G06F19/34 ,  G16H50/20 ,  G16H50/70

Abstract: The present invention provides methods and compositions related to genomic profiling, and in particular, to assigning probabilistic measure of clinical outcome for a patient having a disease or a tumor using segmented genomic profiles such as those produced by representational oligonucleotide microarray analysis (ROMA).

Abstract translation: 本发明提供与基因组分析相关的方法和组合物，特别是使用分段基因组谱（例如由代表性寡核苷酸微阵列分析（ROMA）产生的那些）来分配具有疾病或肿瘤的患者的临床结果的概率测量。

公开(公告)号：WO2010086782A8

公开(公告)日：2011-12-08

申请号：PCT/IB2010050316

申请日：2010-01-25

Applicant: KONINKL PHILIPS ELECTRONICS NV ,  COLD SPRING HARBOR LAB ,  KAMALAKARAN SITHARTHAN ,  JANEVSKI ANGEL ,  HICKS JAMES B

Inventor： KAMALAKARAN SITHARTHAN ,  JANEVSKI ANGEL ,  HICKS JAMES B

IPC: C12Q1/68

CPC classification number: C12Q1/6886 ,  C12Q1/6827 ,  C12Q2600/112 ,  C12Q2600/154 ,  Y10T436/143333 ,  C12Q2537/165

Abstract: Provided is a method for the analysis of breast cancer disorders, comprising determining the genomic methylation status of one or more CpG dinucleotides. Furthermore, a computer program product stored on a computer-readable medium comprising software code adapted to perform the steps of the method when executed on a data-processing apparatus is provided. A device comprising means for supporting a clinician is also provided.

Abstract translation: 提供了一种用于分析乳腺癌病症的方法，包括测定一种或多种CpG二核苷酸的基因组甲基化状态。 此外，提供了存储在计算机可读介质上的计算机程序产品，其包括适于在数据处理装置上执行时执行所述方法的步骤的软件代码。 还提供了一种包括用于支撑临床医生的装置的装置。

公开(公告)号：WO2010085343A1

公开(公告)日：2010-07-29

申请号：PCT/US2010/000158

申请日：2010-01-22

Applicant: COLD SPRING HARBOR LABORATORY ,  HICKS, James, B. ,  HANNON, Gregory, J. ,  HODGES, Emily ,  KENDALL, Jude ,  SMITH, Andrew, D.

Inventor： HICKS, James, B. ,  HANNON, Gregory, J. ,  HODGES, Emily ,  KENDALL, Jude ,  SMITH, Andrew, D.

IPC: C12Q1/68 ,  C12P19/34 ,  C07H21/04

CPC classification number: C12Q1/6869 ,  C12Q1/6827 ,  C12Q1/6837 ,  C12Q2565/501 ,  C12Q2525/191 ,  C12Q2523/125 ,  C12Q2525/155 ,  C12Q2525/117

Abstract: This invention provides methods and arrays for determination of the methylation patterns at single-nucleotide resolution by array-based hybrid selection and next-generation sequencing of bisulfite-treated DNA.

Abstract translation: 本发明提供了通过基于阵列的杂交选择和亚硫酸氢盐处理的DNA的下一代测序来测定单核苷酸分辨率下的甲基化模式的方法和阵列。

公开(公告)号：WO2010073218A2

公开(公告)日：2010-07-01

申请号：PCT/IB2009/055909

申请日：2009-12-22

Applicant: KONINKLIJKE PHILIPS ELECTRONICS N.V. ,  KAMALAKARAN, Sitharthan ,  VARADAN, Vinay ,  HICKS, James, B.

Inventor： KAMALAKARAN, Sitharthan ,  VARADAN, Vinay ,  HICKS, James, B.

IPC: C12Q1/68

CPC classification number: C12Q1/6886 ,  C12Q2600/118 ,  C12Q2600/154 ,  C12Q2600/156

Abstract: 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.

Abstract translation: 提供了包含基因座的甲基化分类表，其中DNA位点的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为癌症的受试者的无复发生存概率的方法，装置和用途。

公开(公告)号：WO2007070640A3

公开(公告)日：2007-08-30

申请号：PCT/US2006047732

申请日：2006-12-14

Applicant: WIGLER MICHAEL H ,  HICKS JAMES B ,  NORTON LARRY ,  ZETTERBERG ANDERS P

Inventor： WIGLER MICHAEL H ,  HICKS JAMES B ,  NORTON LARRY ,  ZETTERBERG ANDERS P

IPC: C12Q1/68

CPC classification number: C12Q1/6886 ,  C12Q2600/106

Abstract: The present invention relates to methods and compositions for detecting genomic rearrangements (e.g., amplification) at one or more genetic loci and various applications of such methods and compositions. Examples of genetic loci include HER2, TOP2A and other loci on the human chromosome 17.

Abstract translation: 本发明涉及用于在一个或多个遗传基因座检测基因组重排（例如扩增）的方法和组合物，以及这些方法和组合物的各种应用。 遗传基因座的例子包括人类染色体17上的HER2，TOP2A和其他基因座。

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

Applicant: KONINKL PHILIPS ELECTRONICS NV ,  COLD SPRING HARBOR LAB ,  VARADAN VINAY ,  KAMALAKARAN SITHARTHAN ,  HICKS JAMES B

Inventor： VARADAN VINAY ,  KAMALAKARAN SITHARTHAN ,  HICKS JAMES B

IPC: C12Q1/68

CPC classification number: C12Q1/6827 ,  C12Q1/6813 ,  C12Q1/6834 ,  C12Q1/6886 ,  C12Q2600/118 ,  C12Q2600/154 ,  C12Q2537/164 ,  C12Q2521/331 ,  C12Q2523/125

Abstract: 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.

Abstract translation: 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。

公开(公告)号：WO2011036604A2

公开(公告)日：2011-03-31

申请号：PCT/IB2010/054152

申请日：2010-09-15

Applicant: KONINKLIJKE PHILIPS ELECTRONICS N.V. ,  COLD SPRING HARBOR LABORATORIES ,  VARADAN, Vinay ,  KAMALAKARAN, Sitharthan ,  HICKS, James, B.

Inventor： VARADAN, Vinay ,  KAMALAKARAN, Sitharthan ,  HICKS, James, B.

IPC: C12Q1/68

CPC classification number: C12Q1/6827 ,  C12Q1/6813 ,  C12Q1/6834 ,  C12Q1/6886 ,  C12Q2600/118 ,  C12Q2600/154 ,  C12Q2537/164 ,  C12Q2521/331 ,  C12Q2523/125

Abstract: 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.

Abstract translation: 本发明涉及基于差异DNA甲基化模式的分析来辅助诊断乳腺癌和/或监测给定样品中的乳腺癌进展的方法。 更特别地，该方法涉及鉴定源自应用各种统计学方法的一种或多种表观遗传标记，以指出一个或多个基因组基因座处甲基化状态差异的预后显着性，并预测是否 分析的样本在治疗后有好的或坏的预后。