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1. 发明授权

US06564151B1 Assigning protein functions by comparative genome analysis protein phylogenetic profiles 有权
标题翻译：通过比较基因组分析蛋白质系统发育谱来分配蛋白质功能
公开(公告)号：US06564151B1
公开(公告)日：2003-05-13
申请号：US09493498
申请日：2000-01-28
申请人： Matteo Pellegrini , Edward M. Marcotte , Michael J. Thompson , David Eisenberg , Robert Grothe , Todd O. Yeates
发明人： Matteo Pellegrini , Edward M. Marcotte , Michael J. Thompson , David Eisenberg , Robert Grothe , Todd O. Yeates
IPC分类号： G06F1900
CPC分类号： G06F19/14 , G06F19/18 , G06F19/22
摘要： A computational method system, and computer program are provided for inferring functional links from genome sequences. One method is based on the observation that some pairs of proteins A′ and B′ have homologs in another organism fused into a single protein chain AB. A trans-genome comparison of sequences can reveal these AB sequences, which are Rosetta Stone sequences because they decipher an interaction between A′ and B. Another method compares the genomic sequence of two or more organisms to create a phylogenetic profile for each protein indicating its presence or absence across all the genomes. The profile provides information regarding functional links between different families of proteins. In yet another method a combination of the above two methods is used to predict functional links.
摘要翻译：提供了一种计算方法系统和计算机程序，用于从基因组序列推断功能链接。一种方法是基于一些观察结果，一些蛋白质A'和B'在另一个生物融合成单个蛋白质链AB的同源物。序列的跨基因组比较可以揭示这些AB序列，它们是Rosetta Stone序列，因为它们破译了A'和B之间的相互作用。另一种方法比较了两种或更多种生物体的基因组序列，以创建每种蛋白质的系统发育谱，存在或不存在所有基因组。该资料提供了不同蛋白质家族之间的功能链接信息。在另一种方法中，使用上述两种方法的组合来预测功能链接。

2. 发明授权

US06466874B1 Rosetta stone method for detecting protein function and protein-protein interactions from genome sequences 有权
标题翻译：用于从基因组序列检测蛋白质功能和蛋白质 - 蛋白质相互作用的Rosetta石方法
公开(公告)号：US06466874B1
公开(公告)日：2002-10-15
申请号：US09493497
申请日：2000-01-28
申请人： David Eisenberg , Edward M. Marcotte , Matteo Pellegrini , Michael J. Thompson , Todd O. Yeates
发明人： David Eisenberg , Edward M. Marcotte , Matteo Pellegrini , Michael J. Thompson , Todd O. Yeates
IPC分类号： G06F1900
CPC分类号： G06F19/14 , G06F19/18 , G06F19/22
摘要： A computational method system, and computer program are provided for inferring functional links from genome sequences. One method is based on the observation that some pairs of proteins A′ and B′ have homologs in another organism fused into a single protein chain AB. A trans-genome comparison of sequences can reveal these AB sequences, which are Rosetta Stone sequences because they decipher an interaction between A′ and B. Another method compares the genomic sequence of two or more organisms to create a phylogenetic profile for each protein indicating its presence or absence across all the genomes. The profile provides information regarding functional links between different families of proteins. In yet another method a combination of the above two methods is used to predict functional links.
摘要翻译：提供了一种计算方法系统和计算机程序，用于从基因组序列推断功能链接。一种方法是基于一些观察结果，一些蛋白质A'和B'在另一个生物融合成单个蛋白质链AB的同源物。序列的跨基因组比较可以揭示这些AB序列，它们是Rosetta Stone序列，因为它们破译了A'和B之间的相互作用。另一种方法比较了两种或更多种生物体的基因组序列，以创建每种蛋白质的系统发育谱，存在或不存在所有基因组。该资料提供了不同蛋白质家族之间的功能链接信息。在另一种方法中，使用上述两种方法的组合来预测功能链接。

3. 发明授权

US06772069B1 Determining protein function and interaction from genome analysis 有权
标题翻译：确定蛋白质功能和基因组分析相互作用
公开(公告)号：US06772069B1
公开(公告)日：2004-08-03
申请号：US09493401
申请日：2000-01-28
申请人： David Eisenberg , Edward M. Marcotte , Michael J. Thompson , Matteo Pellegrini , Todd O. Yeates
发明人： David Eisenberg , Edward M. Marcotte , Michael J. Thompson , Matteo Pellegrini , Todd O. Yeates
IPC分类号： C12Q168
CPC分类号： G06F19/18 , G06F19/14 , G06F19/22
摘要： A computational method system, and computer program are provided for inferring functional links from genome sequences. One method is based on the observation that some pairs of proteins A′ and B′ have homologs in another organism fused into a single protein chain AB. A trans-genome comparison of sequences can reveal these AB sequences, which are Rosetta Stone sequences because they decipher an interaction between A′ and B. Another method compares the genomic sequence of two or more organisms to create a phylogenetic profile for each protein indicating its presence or absence across all the genomes. The profile provides information regarding functional links between different families of proteins. In yet another method a combination of the above two methods is used to predict functional links.
摘要翻译：提供了一种计算方法系统和计算机程序，用于从基因组序列推断功能链接。一种方法是基于一些观察结果，一些蛋白质A'和B'在另一个生物融合成单个蛋白质链AB的同源物。序列的跨基因组比较可以揭示这些AB序列，它们是Rosetta Stone序列，因为它们破译了A'和B之间的相互作用。另一种方法比较了两种或更多种生物体的基因组序列，以创建每种蛋白质的系统发育谱，存在或不存在所有基因组。该资料提供了不同蛋白质家族之间的功能链接信息。在另一种方法中，使用上述两种方法的组合来预测功能链接。

4. 发明授权

US06892139B2 Determining the functions and interactions of proteins by comparative analysis 有权
标题翻译：通过比较分析确定蛋白质的功能和相互作用
公开(公告)号：US06892139B2
公开(公告)日：2005-05-10
申请号：US09712363
申请日：2000-11-13
申请人： David Eisenberg , Sergio H. Rotstein , Edward M. Marcotte
发明人： David Eisenberg , Sergio H. Rotstein , Edward M. Marcotte
IPC分类号： G06F19/00 , G01N33/48 , C12Q1/68 , G01N33/50
CPC分类号： G06F19/18 , G06F19/22
摘要： The invention provides novel methods for characterizing the function of nucleic acids and polypeptides. The invention provides a novel method for identifying a nucleic acid or a polypeptide sequence that may be a target for a drug. The invention provides a novel method for identifying a nucleic acid or a polypeptide sequence that may be essential for the growth or viability of an organism. The characterization is based on use of methods of the invention comprising algorithms that can identify functional relationships between diverse sets of non-homologous nucleic acid and polypeptide sequences. The invention provides a computer program product, stored on a computer-readable medium, for identifying a nucleic acid or a polypeptide sequence that may be essential for the growth or viability of an organism. The invention provides a computer program product, stored on a computer-readable medium, for identifying a nucleic acid or a polypeptide sequence that may be a target for a drug. The invention provides a computer system, comprising a processor and a computer program product of the invention.
摘要翻译：本发明提供用于表征核酸和多肽的功能的新方法。本发明提供了用于鉴定可能是药物靶标的核酸或多肽序列的新方法。本发明提供了一种用于鉴定可能对生物体的生长或活力至关重要的核酸或多肽序列的新方法。该表征基于本发明的方法的使用，其包括可以鉴定不同组非同源核酸和多肽序列之间的功能关系的算法。本发明提供了一种计算机程序产品，其存储在计算机可读介质上，用于鉴定可能对生物体的生长或活力至关重要的核酸或多肽序列。本发明提供了一种计算机程序产品，其存储在计算机可读介质上，用于鉴定可能是药物靶标的核酸或多肽序列。本发明提供一种包括本发明的处理器和计算机程序产品的计算机系统。

5. 发明申请

US20110312505A1 Rapid Isolation of Monoclonal Antibodies from Animals 有权
标题翻译：从动物快速分离单克隆抗体
公开(公告)号：US20110312505A1
公开(公告)日：2011-12-22
申请号：US13109467
申请日：2011-05-17
申请人： Sai Reddy , Xin Ge , Jason Lavinder , Daniel Boutz , Andrew D. Ellington , Edward M. Marcotte , George Georgiou
发明人： Sai Reddy , Xin Ge , Jason Lavinder , Daniel Boutz , Andrew D. Ellington , Edward M. Marcotte , George Georgiou
IPC分类号： C40B20/00 , C12Q1/68 , C07K16/00 , G01N33/68 , C12Q1/34 , G01N33/53
CPC分类号： G06F19/24 , C07K16/065 , C07K2317/55 , C07K2317/56 , C07K2317/565 , C07K2317/622 , C07K2317/92 , C12Q1/6881 , C12Q2600/16 , C40B30/04 , G01N33/6857
摘要： Methods and compositions for identification of candidate antigen-specific variable regions as well as generation of antibodies or antigen-binding fragments that could have desired antigen specificity are provided. For example, in certain aspects methods for determining amino acid sequences of serum antibody CDR and abundancy level are described. In some aspects, methods for determining nucleic acid sequences of antibody variable region sequences and frequency are provided. Furthermore, the invention provides methods for identification and generation of antibody or antigen-binding fragments that comprise highly-represented CDR.
摘要翻译：提供了用于鉴定候选抗原特异性可变区以及产生可能具有所需抗原特异性的抗体或抗原结合片段的方法和组合物。例如，在某些方面，描述了确定血清抗体CDR的氨基酸序列和丰度水平的方法。在一些方面，提供了用于确定抗体可变区序列和频率的核酸序列的方法。此外，本发明提供用于鉴定和产生包含高度表示的CDR的抗体或抗原结合片段的方法。

6. 发明授权

US09090674B2 Rapid isolation of monoclonal antibodies from animals 有权
标题翻译：从动物中快速分离单克隆抗体
公开(公告)号：US09090674B2
公开(公告)日：2015-07-28
申请号：US13109467
申请日：2011-05-17
申请人： Sai Reddy , Xin Ge , Jason Lavinder , Daniel Boutz , Andrew D. Ellington , Edward M. Marcotte , George Georgiou
发明人： Sai Reddy , Xin Ge , Jason Lavinder , Daniel Boutz , Andrew D. Ellington , Edward M. Marcotte , George Georgiou
IPC分类号： C40B30/04 , C07K16/06 , G01N33/68 , C12Q1/68
CPC分类号： G06F19/24 , C07K16/065 , C07K2317/55 , C07K2317/56 , C07K2317/565 , C07K2317/622 , C07K2317/92 , C12Q1/6881 , C12Q2600/16 , C40B30/04 , G01N33/6857
摘要： Methods and compositions for identification of candidate antigen-specific variable regions as well as generation of antibodies or antigen-binding fragments that could have desired antigen specificity are provided. For example, in certain aspects methods for determining amino acid sequences of serum antibody CDR and abundancy level are described. In some aspects, methods for determining nucleic acid sequences of antibody variable region sequences and frequency are provided. Furthermore, the invention provides methods for identification and generation of antibody or antigen-binding fragments that comprise highly-represented CDR.
摘要翻译：提供了用于鉴定候选抗原特异性可变区以及产生可能具有所需抗原特异性的抗体或抗原结合片段的方法和组合物。例如，在某些方面，描述了确定血清抗体CDR的氨基酸序列和丰度水平的方法。在一些方面，提供了用于确定抗体可变区序列和频率的核酸序列的方法。此外，本发明提供用于鉴定和产生包含高度表示的CDR的抗体或抗原结合片段的方法。

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