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1. 发明申请

US20080052008A1 Techniques for Linking Non-Coding and Gene-Coding Deoxyribonucleic Acid Sequences and Applications Thereof 有权
标题翻译：用于连接非编码和基因编码脱氧核糖核酸序列的技术及其应用
公开(公告)号：US20080052008A1
公开(公告)日：2008-02-28
申请号：US11928611
申请日：2007-10-30
申请人： Isidore Rigoutsos , Tien Huynh , Aristotelis Tsirigos , Alice McHardy , Kevin Miranda
发明人： Isidore Rigoutsos , Tien Huynh , Aristotelis Tsirigos , Alice McHardy , Kevin Miranda
IPC分类号： G06F19/00 , C07H21/04 , C12Q1/68
CPC分类号： G06F19/22 , G06F19/18
摘要： Techniques for linking non-coding and gene coding regions of a genome are provided. In one aspect, a method of determining associations between non-coding sequences and gene coding sequences in a genome of an organism comprises the following steps. At least one conserved region is identified from one or more non-coding sequences. Additional instances of the conserved region are located in the untranslated or amino acid coding regions of one or more genes in the organism under consideration, and the conserved region is associated with the one or more biological processes in which these one or more genes participate.
摘要翻译：提供了用于连接基因组的非编码区和基因编码区的技术。一方面，确定生物体基因组中非编码序列与基因编码序列之间的关联的方法包括以下步骤。从一个或多个非编码序列鉴定至少一个保守区。保守区域的另外的实例位于正在考虑的生物体中的一个或多个基因的非翻译区或氨基酸编码区，并且保守区与这些一个或多个基因参与的一个或多个生物学过程相关。

2. 发明申请

US20070042397A1 Techniques for linking non-coding and gene-coding deoxyribonucleic acid sequences and applications thereof 审中-公开
标题翻译：用于连接非编码和基因编码脱氧核糖核酸序列的技术及其应用
公开(公告)号：US20070042397A1
公开(公告)日：2007-02-22
申请号：US11367512
申请日：2006-03-03
申请人： Isidore Rigoutsos , Tien Huynh , Aristotelis Tsirigos , Alice McHardy , Kevin Miranda
发明人： Isidore Rigoutsos , Tien Huynh , Aristotelis Tsirigos , Alice McHardy , Kevin Miranda
IPC分类号： C12Q1/68 , G06F19/00
CPC分类号： G16B30/00 , G16B20/00
摘要： Techniques for linking non-coding and gene coding regions of a genome are provided. In one aspect, a method of determining associations between non-coding sequences and gene coding sequences in a genome of an organism comprises the following steps. At least one conserved region is identified from one or more non-coding sequences. Additional instances of the conserved region are located in the untranslated or amino acid coding regions of one or more genes in the organism under consideration, and the conserved region is associated with the one or more biological processes in which these one or more genes participate.
摘要翻译：提供了用于连接基因组的非编码区和基因编码区的技术。一方面，确定生物体基因组中非编码序列与基因编码序列之间的关联的方法包括以下步骤。从一个或多个非编码序列鉴定至少一个保守区。保守区域的另外的实例位于正在考虑的生物体中的一个或多个基因的非翻译区或氨基酸编码区，并且保守区与这些一个或多个基因参与的一个或多个生物学过程相关。

3. 发明申请

US20060263798A1 System and method for identification of MicroRNA precursor sequences and corresponding mature MicroRNA sequences from genomic sequences 审中-公开
标题翻译：用于鉴定MicroRNA前体序列的系统和方法以及来自基因组序列的相应的成熟MicroRNA序列
公开(公告)号：US20060263798A1
公开(公告)日：2006-11-23
申请号：US11351951
申请日：2006-02-10
申请人： Tien Huynh , Kevin Miranda , Isidore Rigoutsos
发明人： Tien Huynh , Kevin Miranda , Isidore Rigoutsos
IPC分类号： C12Q1/68 , G06F19/00
CPC分类号： G16B30/00 , C12N15/111 , C12N2310/14 , C12N2320/11 , C12N2330/10 , G16B15/00 , G16B20/00 , G16B40/00
摘要： A method for determining microRNA precursors and their corresponding mature microRNAs from genomic sequences is provided. For example, in one aspect of the invention, a method for determining whether a nucleotide sequence contains a microRNA precursor comprises the following steps. Patterns are generated by processing a collection of already known microRNA precursor sequences. One or more attributes are assigned to the generated patterns. Only the patterns whose attributes satisfy certain criteria are subselected, and then the subselected patterns are used to analyze the nucleotide sequence. In another aspect of the invention, a method for identifying a mature microRNA sequence in a microRNA precursor sequence comprises the following steps. One or more patterns are generated by processing a collection of known mature microRNA sequences. The one or more patterns are filtered, and then used to locate instances of the one or more filtered patterns in one or more candidate precursor sequences.
摘要翻译：提供了从基因组序列确定微小RNA前体及其相应的成熟微小RNA的方法。例如，在本发明的一个方面，确定核苷酸序列是否含有微RNA前体的方法包括以下步骤。通过处理已知的微RNA前体序列的集合来产生模式。一个或多个属性被分配给生成的模式。只有属性满足某些标准的模式被选中，然后使用子选择的模式来分析核苷酸序列。在本发明的另一方面，鉴定微小RNA前体序列中的成熟微小RNA序列的方法包括以下步骤。通过处理已知的成熟microRNA序列的集合来产生一个或多个图案。过滤一个或多个图案，然后用于定位一个或多个候选前体序列中的一个或多个滤波图案的实例。

4. 发明申请

US20070154896A1 System and method for identification of MicroRNA target sites and corresponding targeting MicroRNA sequences 审中-公开
标题翻译：用于鉴定MicroRNA靶位点的系统和方法以及相应的靶向MicroRNA序列
公开(公告)号：US20070154896A1
公开(公告)日：2007-07-05
申请号：US11351821
申请日：2006-02-10
申请人： Tien Huynh , Kevin Miranda , Isidore Rigoutsos
发明人： Tien Huynh , Kevin Miranda , Isidore Rigoutsos
IPC分类号： C12Q1/68 , G06F19/00
CPC分类号： G16B30/00 , C12N15/111 , C12N2310/14 , C12N2320/11 , C12N2330/10 , G16B15/00 , G16B20/00 , G16B40/00
摘要： A method for determining whether a nucleotide sequence contains a microRNA binding site and which microRNA will bind thereto is provided. For example, in one aspect of the invention, a method for determining whether a nucleotide sequence contains a microRNA binding site and which microRNA sequence will bind thereto is comprised of the following steps. One or more patterns are generated by processing a collection of known mature microRNA sequences. The reverse complement of each generated patter is then computed. One or more attributes are then assigned to the reverse complement of the one or more generated patterns. The one or more patterns that correspond to a reverse complement having one or more assigned attributes that satisfy at least one criterion are thereafter subselected. Each subselected pattern is then used to analyze the nucleotide sequence, such that a determination is made whether the nucleotide sequence contains a microRNA binding site and which microRNA sequence will bind thereto.
摘要翻译：提供了确定核苷酸序列是否含有微小RNA结合位点以及哪个微小RNA将与其结合的方法。例如，在本发明的一个方面，确定核苷酸序列是否含有微小RNA结合位点以及哪个微小RNA序列将与其结合的方法包括以下步骤。通过处理已知的成熟microRNA序列的集合来产生一个或多个图案。然后计算每个生成的图案的反向补码。然后将一个或多个属性分配给一个或多个生成的模式的反向补码。对应于具有满足至少一个标准的一个或多个分配属性的反向补码的一个或多个模式随后被子选择。然后使用每个子选择图案来分析核苷酸序列，从而确定核苷酸序列是否含有微小RNA结合位点，哪个微小RNA序列将与其结合。

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