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1. 发明授权

US11901042B2 Algorithm to evaluate efficacy of detecting cellular variants in a heterogeneous cell population 有权
公开(公告)号：US11901042B2
公开(公告)日：2024-02-13
申请号：US15976956
申请日：2018-05-11
申请人： Thuraiayah Vinayagamoorthy
发明人： Thuraiayah Vinayagamoorthy
IPC分类号： G16B20/20 , C12Q1/6886 , G16B5/00 , G16B10/00 , G16B15/00 , G16B20/00 , G16B25/00 , G16B30/00 , G16B35/00 , G16B40/00 , G16B45/00 , G16B50/00
CPC分类号： G16B20/20 , C12Q1/6886 , G16B5/00 , G16B10/00 , G16B15/00 , G16B20/00 , G16B25/00 , G16B30/00 , G16B35/00 , G16B40/00 , G16B45/00 , G16B50/00 , C12Q2600/154 , C12Q2600/156
摘要： Somatic mutations are associated with cancer progression and treatment using targeted therapies. Somatic mutations are not inherited and could be present at low concentrations in biopsy samples. Hence, there is a need for more sensitive assays to detect these changes in the presence of heterogeneous cell populations. The efficacy of such detection is determined by two factors; the ability to detect a minimum number of copies of the target mutation in the sample (Lower limit of detection), and the ratio of target mutation to that of wild-type in the sample (Tumor content). A new algorithm Detection Index (DI) is formulated to evaluate the efficacy of detection for a molecular testing method.

2. 发明授权

US09150906B2 Determination of variants produced upon replication or transcription of nucleic acid sequences 有权
标题翻译：确定在核酸序列的复制或转录时产生的变体
公开(公告)号：US09150906B2
公开(公告)日：2015-10-06
申请号：US11475921
申请日：2006-06-28
申请人： Thuraiayah Vinayagamoorthy
发明人： Thuraiayah Vinayagamoorthy
IPC分类号： C12P19/34 , C12Q1/68
CPC分类号： C12Q1/6806 , C12Q1/6813
摘要： A method of determining whether or not a nucleic acid having an expected sequence or one or more variants of the expected sequence are present in a sample containing nucleic acids after replication, transcription or editing (or other transformation) of a substrate nucleic acid. The method involves deciding an expected sequence likely to be formed in the sample upon the replication, transcription or editing of the substrate nucleic acid, and possible variants of the expected sequence, providing primer pairs for a polymerase chain reaction, reverse transcriptase polymerase chain reaction or ligase chain reaction, carrying out the polymerase chain reaction or reverse transcriptase polymerase chain reaction in one or more steps to form amplicons, and analyzing the amplicons to determining whether or not a nucleic acid having the expected sequence and/or variants are present in the sample. The primers of the primer pairs are designed to anneal to regions of the nucleic acid of the expected sequence and the variants, the regions being selected to reveal unambiguously the presence or absence in the sample of the nucleic acid of the expected sequence or the variants thereof according to the presence or absence of specific amplicons amplified by the primers.
摘要翻译：一种确定具有预期序列或预期序列的一个或多个变体的核酸是否存在于含有底物核酸的复制，转录或编辑（或其他转化）之后的核酸的样品中的方法。该方法涉及确定在底物核酸的复制，转录或编辑时可能在样品中形成的预期序列，以及预期序列的可能变体，提供聚合酶链式反应的引物对，逆转录酶聚合酶链式反应或连接酶链反应，在一个或多个步骤中进行聚合酶链反应或逆转录酶聚合酶链反应以形成扩增子，并分析扩增子以确定样品中是否存在具有预期序列和/或变体的核酸。引物对的引物被设计为退火到期望序列和变体的核酸区域，该区域被选择以明确地揭示预期序列或其变体的核酸样品中的存在或不存在根据引物扩增的特异扩增子的存在或不存在。

3. 发明申请

US20080118915A1 SYNTHESIS OF SINGLE-STRANDED DNA 有权
标题翻译：单链DNA的合成
公开(公告)号：US20080118915A1
公开(公告)日：2008-05-22
申请号：US11464273
申请日：2006-08-14
申请人： Thuraiayah Vinayagamoorthy
发明人： Thuraiayah Vinayagamoorthy
IPC分类号： C12Q1/68 , C12P19/34
CPC分类号： C12P19/34 , C12N15/10
摘要： A method of producing single-stranded DNA. In one form, the method involves providing a uracil-containing oligonucleotide template molecule having a sequence that is complementary to a part of a target single-stranded DNA molecule of length greater than the template molecule; providing one or more parts of the target molecule including a base sequence complementary to a part of the template molecule; annealing the part(s) of the target molecule to the template molecule and forming the complete target molecule by ligating together at least two adjacent parts of the target molecule while annealed to the template molecule, and/or extending at least one part of the target molecule to form a sequence complementary to a remainder of the template molecule by nucleotide polymerization, and then separating the template molecule from the target molecule. In another form, an intermediate molecule is annealed to the template and then enzymatically cut, and one part is then extended by DNA polymerization using monomers of increased molecular weight or ionic charge compared to the monomers used to form the intermediate molecule.
摘要翻译：一种单链DNA的制备方法。在一种形式中，该方法包括提供含有尿嘧啶的寡核苷酸模板分子，其具有与长度大于模板分子的目标单链DNA分子部分互补的序列; 提供靶分子的一个或多个部分，包括与模板分子的一部分互补的碱基序列; 将靶分子的部分退火至模板分子，并通过将靶分子的至少两个相邻部分连接在一起，同时与模板分子退火而形成完整的靶分子，和/或延伸靶的至少一部分分子通过核苷酸聚合形成与模板分子的其余部分互补的序列，然后将模板分子与靶分子分离。在另一种形式中，将中间体分子与模板退火，然后进行酶切，然后通过与用于形成中间分子的单体相比增加分子量或离子电荷的单体通过DNA聚合延伸一部分。

4. 发明授权

US5994528A Method of detecting gene expression and/or of preventing such expression in cells 失效
标题翻译：在细胞中检测基因表达和/或预防这种表达的方法
公开(公告)号：US5994528A
公开(公告)日：1999-11-30
申请号：US38014
申请日：1998-03-11
申请人： Thuraiayah Vinayagamoorthy , Eric Schloss
发明人： Thuraiayah Vinayagamoorthy , Eric Schloss
IPC分类号： C12Q1/68 , C07H21/02 , C07H21/04 , C12P19/301
CPC分类号： C12Q1/6851
摘要： A method of amplifying a nucleotide sequence complementary to an mRNA template derived from genomic DNA. The method involves the following steps. A sample mixture containing an mRNA template and corresponding genomic DNA is provided, the genomic DNA including at least two exons separated by at least one intron. A pair of intron-blockers are introduced into the mixture, the intron-blockers comprising a sequence of intron-specific oligonucleotides modified to prevent nucleotide extension in conditions promoting polymerase chain reaction. A primer pair promoting amplification of cDNA derived from the mRNA template is introduced into the mixture and then reverse transcription polymerase chain reaction is carried out to amplify cDNA. Detection of the cDNA is proof of the existence of mRNA in the sample, and thus proof of expression of the corresponding gene. The method avoids false positives caused by amplification of genomic DNA as well as cDNA based on an mRNA template. The invention includes a method of suppressing gene expression in vivo, which comprises exposing cells containing a gene to be suppressed, made up of exons and at least one intron, to intron-blockers having nucleotide sequences that bind to the intron to prevent gene expression.
摘要翻译：扩增与衍生自基因组DNA的mRNA模板互补的核苷酸序列的方法。该方法包括以下步骤。提供了含有mRNA模板和相应的基因组DNA的样品混合物，所述基因组DNA包括至少两个由至少一个内含子分开的外显子。将一对内含子阻断剂引入混合物中，内含子阻断剂包含修饰以在促进聚合酶链反应的条件下防止核苷酸延伸的内含子特异性寡核苷酸序列。将从mRNA模板衍生的cDNA扩增的引物对引入混合物中，然后进行逆转录聚合酶链反应以扩增cDNA。 cDNA的检测证明了样品中mRNA的存在，从而证明了相应基因的表达。该方法避免了基因组DNA扩增引起的假阳性以及基于mRNA模板的cDNA。本发明包括抑制体内基因表达的方法，该方法包括将含有由外显子和至少一个内含子组成的待抑制基因的细胞暴露于具有与内含子结合的核苷酸序列以防止基因表达的内含子阻断剂。

5. 发明授权

US07727745B2 Synthesis of single-stranded DNA 有权
标题翻译：单链DNA的合成
公开(公告)号：US07727745B2
公开(公告)日：2010-06-01
申请号：US11464273
申请日：2006-08-14
申请人： Thuraiayah Vinayagamoorthy
发明人： Thuraiayah Vinayagamoorthy
IPC分类号： C12P19/34 , C07H21/02
CPC分类号： C12P19/34 , C12N15/10
摘要： A method of producing single-stranded DNA. In one form, the method involves providing a uracil-containing oligonucleotide template molecule having a sequence that is complementary to a part of a target single-stranded DNA molecule of length greater than the template molecule; providing one or more parts of the target molecule including a base sequence complementary to a part of the template molecule; annealing the part(s) of the target molecule to the template molecule and forming the complete target molecule by ligating together at least two adjacent parts of the target molecule while annealed to the template molecule, and/or extending at least one part of the target molecule to form a sequence complementary to a remainder of the template molecule by nucleotide polymerization, and then separating the template molecule from the target molecule. In another form, an intermediate molecule is annealed to the template and then enzymatically cut, and one part is then extended by DNA polymerization using monomers of increased molecular weight or ionic charge compared to the monomers used to form the intermediate molecule.
摘要翻译：一种单链DNA的制备方法。在一种形式中，该方法包括提供含有尿嘧啶的寡核苷酸模板分子，其具有与长度大于模板分子的目标单链DNA分子部分互补的序列; 提供靶分子的一个或多个部分，包括与模板分子的一部分互补的碱基序列; 将靶分子的部分退火至模板分子，并通过将靶分子的至少两个相邻部分连接在一起，同时与模板分子退火而形成完整的靶分子，和/或延伸靶的至少一部分分子通过核苷酸聚合形成与模板分子的其余部分互补的序列，然后将模板分子与靶分子分离。在另一种形式中，将中间体分子与模板退火，然后进行酶切，然后通过与用于形成中间分子的单体相比增加分子量或离子电荷的单体通过DNA聚合延伸一部分。

6. 发明申请

US20070072212A1 Use of markers including nucleotide sequence based codes to monitor methods of detection and identification of genetic material 有权
标题翻译：使用包括基于核苷酸序列的代码的标记来监测遗传物质的检测和鉴定方法
公开(公告)号：US20070072212A1
公开(公告)日：2007-03-29
申请号：US11481046
申请日：2006-07-06
申请人： Thuraiayah Vinayagamoorthy
发明人： Thuraiayah Vinayagamoorthy
IPC分类号： C12Q1/68 , G06F19/00
CPC分类号： C12Q1/6869 , C12Q1/6848 , C12Q1/686
摘要： The use of artificially-generated nucleic acid coded markers to monitor nucleic acid amplification and sequencing reactions designed to detect or analyze biological samples. The markers generally include, along with a unique sequence preferably including coded section designed to represent one or more factors of interest, primer annealing sequences so that the marker may be amplified and sequenced in the same process and using the same amplification and sequencing primers as for the sample target. The invention also relates to the marker itself, and other uses, such as identifying the origin of various materials or products.
摘要翻译：使用人工产生的核酸编码标记物来监测设计用于检测或分析生物样品的核酸扩增和测序反应。标记通常包括优选包括被设计成代表一个或多个感兴趣因子的编码区的唯一序列，引物退火序列，使得标记可以在相同方法中扩增和测序，并使用相同的扩增和测序引物样本目标。本发明还涉及标记本身以及其他用途，例如识别各种材料或产品的来源。

7. 发明授权

US5912129A Multi-zone polymerase/ligase chain reaction 失效
标题翻译：多区聚合酶/连接酶链反应
公开(公告)号：US5912129A
公开(公告)日：1999-06-15
申请号：US35091
申请日：1998-03-05
申请人： Thuraiayah Vinayagamoorthy , Roger Grant Hodkinson
发明人： Thuraiayah Vinayagamoorthy , Roger Grant Hodkinson
IPC分类号： B01L7/00 , C12Q1/68 , C40B40/06 , C40B60/14 , C12P19/34
CPC分类号： B01L7/52 , B01J2219/00313 , B01J2219/00459 , B01J2219/00468 , B01J2219/00495 , B01J2219/0059 , B01J2219/00596 , B01J2219/00722 , C40B40/06 , C40B60/14
摘要： A process of amplifying a nucleic acid sequence by a procedure involving a polymerase chain reaction or a ligase chain reaction. The process involves repeated cycles of steps including a nucleic acid denaturing step and a nucleic acid synthesis step, the synthesis step being carried out under the action of an enzyme (a nucleic acid polymerase or ligase). The denaturing step and the synthesis step are carried out in different denaturing and synthesis reaction zones, respectively, and, during the repeated cycles, the enzyme is maintained in isolation from the denaturing reaction zone, and conditions or reagents required for the denaturing step are maintained in isolation from the synthesis reaction zone to the extent that the reagents and conditions required for denaturing do not impede the synthesis reaction to a substantial extent. The use of separate zones for the steps of the reactions means that an enzyme that is destroyed or degraded by the reagents and conditions required for denaturing (e.g. a thermolabile or alkalolabile polymerase or ligase) may be used in the reaction. Moreover, the use of multiple zones means that inexpensive equipment may be used for the process.
摘要翻译：通过涉及聚合酶链式反应或连接酶链式反应的方法扩增核酸序列的方法。该方法包括重复的步骤循环，包括核酸变性步骤和核酸合成步骤，所述合成步骤在酶（核酸聚合酶或连接酶）的作用下进行。变性步骤和合成步骤分别在不同的变性和合成反应区进行，并且在重复循环期间，将酶与变性反应区分离，并维持变性步骤所需的条件或试剂与合成反应区隔离，使得变性所需的试剂和条件不会在很大程度上阻碍合成反应。在反应步骤中使用单独的区域意味着可以在反应中使用由变性所需的试剂和条件（例如耐热不稳定性或可惰性聚合酶或连接酶）破坏或降解的酶。此外，使用多个区域意味着便宜的设备可用于该过程。

8. 发明授权

US5711310A Apparatus for collecting a mid-stream urine sample 失效
标题翻译：用于收集中流尿样的装置
公开(公告)号：US5711310A
公开(公告)日：1998-01-27
申请号：US684661
申请日：1996-07-19
申请人： Thuraiayah Vinayagamoorthy , Edmond Charleton
发明人： Thuraiayah Vinayagamoorthy , Edmond Charleton
IPC分类号： A61B5/20 , A61B5/00
CPC分类号： A61B10/007 , A61B5/20 , A61B5/201 , A61B5/202
摘要： An apparatus for collecting a mid-stream urine sample includes a funnel having a wide end and a narrow end. The funnel is supported over a specimen container with the narrow end of the funnel at a mouth of the specimen container. A tubular receptacle depends from and is in fluid communication with the narrow end of the funnel. The tubular receptacle has at least one radial overflow passage adjacent the narrow end of the funnel. Once the tubular receptacle is filled with urine, any further urine entering the tubular receptacle overflows through the radial overflow passage.
摘要翻译：收集中流尿样的装置包括具有宽端和窄端的漏斗。漏斗被支撑在样品容器上，其中漏斗的窄端在样品容器的口部。管状容器从漏斗的狭窄端部处于流体连通状态。管状容器具有与漏斗的窄端相邻的至少一个径向溢流通道。一旦管状容器充满尿液，则进入管状容器的任何其他尿液都会通过径向溢流通道溢出。

9. 发明授权

US08785130B2 Use of markers including nucleotide sequence based codes to monitor methods of detection and identification of genetic material 有权
标题翻译：使用包括基于核苷酸序列的代码的标记来监测遗传物质的检测和鉴定方法
公开(公告)号：US08785130B2
公开(公告)日：2014-07-22
申请号：US11481046
申请日：2006-07-06
申请人： Thuraiayah Vinayagamoorthy
发明人： Thuraiayah Vinayagamoorthy
IPC分类号： C12Q1/68 , G06F19/00
CPC分类号： C12Q1/6869 , C12Q1/6848 , C12Q1/686
摘要： Disclosed is the use of artificially-generated nucleic acid coded markers to monitor nucleic acid amplification and sequencing reactions designed to detect or analyze biological samples. The markers generally include, along with a unique sequence preferably including coded section designed to represent one or more factors of interest, primer annealing sequences so that the marker may be amplified and sequenced in the same process and using the same amplification and sequencing primers as for the sample target. The invention also relates to the marker itself, and other uses, such as identifying the origin of various materials or products.
摘要翻译：公开了人造产生的核酸编码标记物用于监测设计用于检测或分析生物样品的核酸扩增和测序反应的用途。标记通常包括优选包括被设计成代表一个或多个感兴趣因子的编码区的唯一序列，引物退火序列，使得标记可以在相同方法中扩增和测序，并使用相同的扩增和测序引物样本目标。本发明还涉及标记本身以及其他用途，例如识别各种材料或产品的来源。

10. 发明申请

US20080003573A1 Determination of variants produced upon replication or transcription of nucleic acid sequences 有权
标题翻译：确定在核酸序列的复制或转录时产生的变体
公开(公告)号：US20080003573A1
公开(公告)日：2008-01-03
申请号：US11475921
申请日：2006-06-28
申请人： Thuraiayah Vinayagamoorthy
发明人： Thuraiayah Vinayagamoorthy
IPC分类号： C12Q1/68 , C12P19/34
CPC分类号： C12Q1/6806 , C12Q1/6813
摘要： A method of determining whether or not a nucleic acid having an expected sequence or one or more variants of the expected sequence are present in a sample containing nucleic acids after replication, transcription or editing (or other transformation) of a substrate nucleic acid. The method involves deciding an expected sequence likely to be formed in the sample upon the replication, transcription or editing of the substrate nucleic acid, and possible variants of the expected sequence, providing primer pairs for a polymerase chain reaction, reverse transcriptase polymerase chain reaction or ligase chain reaction, carrying out the polymerase chain reaction or reverse transcriptase polymerase chain reaction in one or more steps to form amplicons, and analyzing the amplicons to determining whether or not a nucleic acid having the expected sequence and/or variants are present in the sample. The primers of the primer pairs are designed to anneal to regions of the nucleic acid of the expected sequence and the variants, the regions being selected to reveal unambiguously the presence or absence in the sample of the nucleic acid of the expected sequence or the variants thereof according to the presence or absence of specific amplicons amplified by the primers.
摘要翻译：一种确定具有预期序列或预期序列的一个或多个变体的核酸是否存在于含有底物核酸的复制，转录或编辑（或其他转化）之后的核酸的样品中的方法。该方法涉及确定在底物核酸的复制，转录或编辑时可能在样品中形成的预期序列，以及预期序列的可能变体，提供聚合酶链式反应的引物对，逆转录酶聚合酶链式反应或连接酶链反应，在一个或多个步骤中进行聚合酶链反应或逆转录酶聚合酶链反应以形成扩增子，并分析扩增子以确定样品中是否存在具有预期序列和/或变体的核酸。引物对的引物被设计为退火到期望序列和变体的核酸区域，该区域被选择以明确地揭示预期序列或其变体的核酸样品中的存在或不存在根据引物扩增的特异扩增子的存在或不存在。

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