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1. 发明授权

US09443056B2 Phased whole genome genetic risk in a family quartet 有权
公开(公告)号：US09443056B2
公开(公告)日：2016-09-13
申请号：US13445925
申请日：2012-04-13
申请人： Frederick Dewey , Euan A. Ashley , Jake Byrnes , Carlos Daniel Bustamante , Atul J. Butte , Rong Chen
发明人： Frederick Dewey , Euan A. Ashley , Jake Byrnes , Carlos Daniel Bustamante , Atul J. Butte , Rong Chen
IPC分类号： G06F19/18 , G11C17/00 , G06F15/00 , G06F19/12 , G06F19/24 , G06N5/02 , G06F19/22
摘要： An embodiment of the present invention is a methodology for prioritizing variants relevant to inherited Mendelian (“single gene”) disease syndromes according to disease phenotype, gene, and variant level information.

2. 发明申请

US20120165207A1 Methods for Monitoring Allograft Rejection 审中-公开
标题翻译：监测同种异体移植排斥的方法
公开(公告)号：US20120165207A1
公开(公告)日：2012-06-28
申请号：US13148458
申请日：2010-02-12
申请人： Atul J. Butte , Rong Chen , Minnie M. Sarwal , Tara Sigdel
发明人： Atul J. Butte , Rong Chen , Minnie M. Sarwal , Tara Sigdel
IPC分类号： G01N33/566 , C40B30/04
CPC分类号： G01N33/6893 , G01N2333/521 , G01N2333/70503 , G01N2333/70585 , G01N2800/245
摘要： Methods are provided for monitoring an allograft recipient for a rejection response, e.g., to predict, to diagnose, and/or to characterize a rejection response. In practicing the subject methods, the level of at least one protein in a sample from the allograft recipient, e.g., serum, urine, blood, CSF, tears or saliva, is evaluated, to monitor the subject. Also provided are compositions, systems, and kits that find use in practicing the subject methods.
摘要翻译：提供了用于监测同种异体移植受体以获得排斥反应的方法，例如预测，诊断和/或表征拒绝反应。在实施本发明方法中，评价来自同种异体移植物受体（例如血清，尿液，血液，CSF，泪液或唾液）的样品中至少一种蛋白质的水平，以监测受试者。还提供了用于实践主题方法的组合物，系统和试剂盒。

3. 发明授权

US08700337B2 Method and system for computing and integrating genetic and environmental health risks for a personal genome 有权
标题翻译：计算和整合个人基因组遗传和环境健康风险的方法和系统
公开(公告)号：US08700337B2
公开(公告)日：2014-04-15
申请号：US13279643
申请日：2011-10-24
申请人： Joel T. Dudley , Atul J. Butte , Alexander A. Morgan
发明人： Joel T. Dudley , Atul J. Butte , Alexander A. Morgan
IPC分类号： G06F19/00 , G06F15/00 , A61B5/00
CPC分类号： G06F19/18
摘要： Methods and systems are provided for the computation and display of an individual's personalized health risk based on the genome sequence of the individual, known etiological interactions between diseases for which the individual is determined to have genetic risk factors, and environmental etiological factors associated with the same diseases that represent potentially modifiable disease risk modifiers.
摘要翻译：提供方法和系统，用于基于个体的基因组序列计算和显示个人的个人健康风险，个体被确定具有遗传风险因素的疾病之间的已知病原学相互作用以及与之相关的环境病因学因素代表潜在可修改的疾病风险调节剂的疾病。

4. 发明申请

US20130116931A1 Method and System for the Use of Biomarkers for Regulatory Dysfunction in Disease 有权
标题翻译：生物标志物用于疾病调节功能障碍的方法和系统
公开(公告)号：US20130116931A1
公开(公告)日：2013-05-09
申请号：US13592292
申请日：2012-08-22
申请人： Konrad Karczewski , Michael Snyder , Atul J. Butte , Joel T. Dudley , Eurie Hong , Alan Boyle , J. Michael Cherry
发明人： Konrad Karczewski , Michael Snyder , Atul J. Butte , Joel T. Dudley , Eurie Hong , Alan Boyle , J. Michael Cherry
IPC分类号： G06F19/10
CPC分类号： G06F19/24 , G06F19/10 , G06F19/18
摘要： Measuring of the binding of a transcription factor (using, for example, chromatin immunoprecipitation) according to the present invention is provides an improved marker for a disease. These markers can be used in diagnostics for diseases where a transcription factor binding event plays a role. Additionally, they can be used to adjust disease risk profiles for healthy individuals as with typical genetic variants.
摘要翻译：测量根据本发明的转录因子（使用例如染色质免疫沉淀）的结合提供了改进的疾病标记物。这些标记可用于诊断转录因子结合事件发挥作用的疾病。此外，它们可用于调整健康个体的疾病风险概况，与典型遗传变异体一样。

5. 发明申请

US20120077689A1 Compartment-Specific Non-HLA Targets for Diagnosis and Prediction of Graft Outcome 审中-公开
标题翻译：隔室特异性非HLA靶标用于诊断和预测移植物结果
公开(公告)号：US20120077689A1
公开(公告)日：2012-03-29
申请号：US13201838
申请日：2010-02-16
申请人： Minnie M. Sarwal , Atul J. Butte
发明人： Minnie M. Sarwal , Atul J. Butte
IPC分类号： C40B30/04 , G01N33/567 , C12Q1/68
CPC分类号： G01N33/6854 , G01N2333/70539 , G01N2800/245 , G01N2800/50
摘要： Methods and composition are provided for diagnosing or predicting the status or the outcome of a graft transplant. In some embodiments, the presence or absence of one or more proteins recognizing a non-HLA/non ABO antigen is determined. The obtained result is then employed to diagnose or predict the status or outcome of the graft transplant. Also provided are compositions, systems and kits that find use in practicing the subject methods.
摘要翻译：提供了用于诊断或预测移植物移植的状态或结果的方法和组成。在一些实施方案中，确定识别非HLA /非ABO抗原的一种或多种蛋白质的存在或不存在。获得的结果然后用于诊断或预测移植物移植的状态或结果。还提供了用于实践主题方法的组合物，系统和试剂盒。

6. 发明申请

US20120101736A1 Method and System for Computing and Integrating Genetic and Environmental Health Risks for a Personal Genome 有权
标题翻译：计算和整合个人基因组遗传和环境健康风险的方法和系统
公开(公告)号：US20120101736A1
公开(公告)日：2012-04-26
申请号：US13279643
申请日：2011-10-24
申请人： Joel T. Dudley , Atul J. Butte
发明人： Joel T. Dudley , Atul J. Butte
IPC分类号： G06F19/24
CPC分类号： G06F19/18
摘要： Methods and systems are provided for the computation and display of an individual's personalized health risk based on the genome sequence of the individual, known etiological interactions between diseases for which the individual is determined to have genetic risk factors, and environmental etiological factors associated with the same diseases that represent potentially modifiable disease risk modifiers.
摘要翻译：提供方法和系统，用于基于个体的基因组序列计算和显示个人的个人健康风险，个体被确定具有遗传风险因素的疾病之间的已知病原学相互作用以及与之相关的环境病因学因素代表潜在可修改的疾病风险调节剂的疾病。

7. 发明申请

US20120076797A1 Modulation of kit signaling and hematopoietic cell development by IL-4 receptor modulation 审中-公开
标题翻译：通过IL-4受体调节调节试剂盒信号和造血细胞发育
公开(公告)号：US20120076797A1
公开(公告)日：2012-03-29
申请号：US13135654
申请日：2011-07-12
申请人： Atul J. Butte , Kenneth Weinberg , Shivkumar Venkatasubrahmanyam , Maheswaran Mani
发明人： Atul J. Butte , Kenneth Weinberg , Shivkumar Venkatasubrahmanyam , Maheswaran Mani
IPC分类号： A61K39/395 , C12Q1/02 , C12Q1/06 , A61P35/00 , A61P35/02 , A61P7/06 , G01N33/566 , C12Q1/68
CPC分类号： C12Q1/485 , C12Q1/6886 , C12Q2600/136 , C12Q2600/158 , G01N33/5041 , G01N2333/5406
摘要： Methods and compositions are provided for modulating Kit/stem cell factor receptor (SCFR)/CD117 and interleukin 4 receptor (IL-4R) signaling in a cell in vitro and in vivo, and for identifying candidate agents with activity in modulating Kit and IL-4R signaling. These methods find particular use in treating disorders of the hematopoietic system and in modulating hematopoietic stem cell expansion.
摘要翻译：提供了用于在体外和体内在细胞中调节试剂盒/干细胞因子受体（SCFR）/ CD117和白细胞介素4受体（IL-4R）信号传导的方法和组合物，并用于鉴定具有调节试剂盒和IL- 4R信号。这些方法特别用于治疗造血系统的紊乱和调节造血干细胞的扩张。

8. 发明授权

US09535075B2 Protein and gene biomarkers for rejection of organ transplants 有权
标题翻译：用于器官移植排斥的蛋白质和基因生物标志物
公开(公告)号：US09535075B2
公开(公告)日：2017-01-03
申请号：US13635667
申请日：2011-03-25
申请人： Minnie M. Sarwal , Tara Sigdel , Amit Kaushal , Li Li , Wenzhong Xiao , Atul J. Butte , Purvesh Khatri
发明人： Minnie M. Sarwal , Tara Sigdel , Amit Kaushal , Li Li , Wenzhong Xiao , Atul J. Butte , Purvesh Khatri
IPC分类号： C12Q1/68 , G01N33/68
CPC分类号： G01N33/6893 , C12Q1/6809 , C12Q1/6883 , C12Q2600/158 , G01N2800/245
摘要： Aspects of the present invention include methods for determining a transplant category of a subject having a transplant. Common mechanisms of rejection injury are uncovered across different tissue transplants, and provide a means to understand rational drug design. Various sources of tissues are examined form the patient for understanding AR mechanism (graft biopsy), as well as monitoring by minimal invasive means (blood) or non-invasive means (urine for the kidney allograft). For biomarker discovery different categories of markers are examined such as genes, proteins, peptides and antibodies. These biomarkers can help determine the subject's transplant category (e.g., acute allograft rejection (AR), stable allograft (STA), BK viremia, BK nephritis, drug toxicity or chronic allograft injury (CAI), and the like). Also provided are compositions, systems, kits and computer program products that find use in practicing the subject methods. The methods and compositions find use in a variety of applications.
摘要翻译：本发明的方面包括用于确定具有移植物的受试者的移植类别的方法。排除损伤的常见机制在不同的组织移植中被发现，并且提供了解理性药物设计的手段。从患者身上检查各种来源的组织，以了解AR机制（移植物活检），以及通过最小侵入性手段（血液）或非侵入性手段（尿同种异体移植物的尿液）进行监测。对于生物标志物发现，检查不同类别的标记物，例如基因，蛋白质，肽和抗体。这些生物标志物可以帮助确定受试者的移植类别（例如急性同种异体移植排斥（AR），稳定的同种异体移植物（STA），BK病毒血症，BK肾炎，药物毒性或慢性同种异体移植物损伤（CAI）等）。还提供了用于实践主题方法的组合物，系统，试剂盒和计算机程序产品。这些方法和组合物可用于各种应用。

9. 发明申请

US20120021414A1 DIAGNOSTIC MARKERS OF IMMUNOSENESCENCE AND METHODS OF USE THEREOF 审中-公开
标题翻译：免疫球蛋白的诊断标记及其使用方法
公开(公告)号：US20120021414A1
公开(公告)日：2012-01-26
申请号：US13168974
申请日：2011-06-25
申请人： Shai S. Shen-Orr , Atul J. Butte , Mark M. Davis , David Furman , Brian A. Kidd
发明人： Shai S. Shen-Orr , Atul J. Butte , Mark M. Davis , David Furman , Brian A. Kidd
IPC分类号： C12Q1/68 , G01N33/53
CPC分类号： G01N33/5091 , G01N2333/52 , G01N2333/70514 , G01N2333/70517 , G01N2333/70521 , G01N2800/60
摘要： Embodiments of the present invention provide diagnostic markers of immunosenescence and methods of identifying individuals with impaired immune function based on a combination of such markers obtained from various analyses, primarily from blood, testing immune function including the analysis of immune cell subset frequencies, gene expression, cytokine and chemokine levels, and signaling responses to stimulation with cytokines (‘cytokine response’). Particular combinations of markers can predict with high accuracy whether an individual will respond to active vaccination and become protected against recurring diseases.
摘要翻译：本发明的实施方案提供了免疫衰老的诊断标记和基于从各种分析（主要来自血液，测试免疫功能，包括免疫细胞亚群频率分析，基因表达，细胞因子和趋化因子水平，以及用细胞因子刺激的信号转导（'细胞因子反应'）。标志物的特殊组合可以高精度预测个体是否对活动性疫苗接种作出反应，并且可以防止复发性疾病。

10. 发明授权

US10119959B2 Method of assaying an individual for immune impairment 有权
公开(公告)号：US10119959B2
公开(公告)日：2018-11-06
申请号：US13168974
申请日：2011-06-25
申请人： Shai S. Shen-Orr , Atul J. Butte , Mark M. Davis , David Furman , Brian A. Kidd
发明人： Shai S. Shen-Orr , Atul J. Butte , Mark M. Davis , David Furman , Brian A. Kidd
IPC分类号： G01N31/00 , G01N33/50
摘要： Embodiments of the present invention provide diagnostic markers of immunosenescence and methods of identifying individuals with impaired immune function based on a combination of such markers obtained from various analyzes, primarily from blood, testing immune function including the analysis of immune cell subset frequencies, gene expression, cytokine and chemokine levels, and signaling responses to stimulation with cytokines (‘cytokine response’). Particular combinations of markers can predict with high accuracy whether an individual will respond to active vaccination and become protected against recurring diseases.

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