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1. 发明申请

WO2011040886A9 METHODS AND ARRAYS FOR DNA SEQUENCING 审中-公开
公开(公告)号：WO2011040886A9
公开(公告)日：2011-04-07
申请号：PCT/SG2010/000371
申请日：2010-09-29
申请人： AGENCY FOR SCIENCE, TECHNOLOGY AND RESEARCH , WONG, Wing Cheong, Christopher , LEE, Wah Heng, Charlie , SUNG, Wing Kin , HIBBERD, Martin Lloyd
发明人： WONG, Wing Cheong, Christopher , LEE, Wah Heng, Charlie , SUNG, Wing Kin , HIBBERD, Martin Lloyd
IPC分类号： C12Q1/68 , C12Q1/04
摘要： A method of sequencing a first polynucleotide strand having a first polynucleotide sequence, the first polynucleotide strand resembling a second polynucleotide strand having a known second polynucleotide sequence, the method employing a data set which, for one or more fragment(s) of the second polynucleotide sequence, contains: for each position along each said fragment: (i) first probe data describing the hybridization intensity of the first polynucleotide strand with a respective first probe designed to bind to a portion of the second polynucleotide strand centered at said position; and (ii) second probe data describing the respective hybridization intensities of the first polynucleotide strand with each of a set of second probes, each said second probe being designed to bind with a respective mutation of the corresponding portion of the second polynucleotide sequence which is formed by mutating the corresponding portion of the second polynucleotide sequence at said position, the data set including said second probe data for every possible said mutation; the method comprising: for each said position, obtaining from the dataset a first numerical parameter characterizing the hybridization intensity of the first polynucleotide strand with the corresponding first probe in comparison to the hybridization intensities of the first polynucleotide strand with the corresponding second probes; said first numerical parameter being indicative of whether a nucleic acid of the first polynucleotide sequence is equal to a nucleic acid the second polynucleotide sequence at said position.

2. 发明申请

WO2007021250A3 METHOD AND/OR APPARATUS OF OLIGONUCLEOTIDE DESIGN AND/OR NUCLEIC ACID DETECTION 审中-公开
标题翻译：寡核苷酸设计和/或核酸检测的方法和/或装置
公开(公告)号：WO2007021250A3
公开(公告)日：2007-07-05
申请号：PCT/SG2006000224
申请日：2006-08-08
申请人： AGENCY SCIENCE TECH & RES , WONG CHRISTOPHER WING CHEONG , SUNG WING-KIN , LEE CHARLIE , MILLER LANCE DAVID
发明人： WONG CHRISTOPHER WING CHEONG , SUNG WING-KIN , LEE CHARLIE , MILLER LANCE DAVID
IPC分类号： C12Q1/68 , G06F19/00
CPC分类号： C12Q1/6813 , G06F19/20
摘要： It is provided a method of designing at least one oligonucleotide for nucleic acid detection comprising the following steps in any order: (I) identifying and/or selecting region(s) of at least one target nucleic acid to be amplified, the region(s) having an efficiency of amplification (AE) higher than the average AE; and (II) designing at least one oligonucleotide capable of hybridizing to the selected region(s). It is also provided a method of detecting at least one target nucleic acid comprising the steps of: (i) providing at least one biological sample; (ii) amplifying nucleic acid(s) comprised in the biological sample; (iii) providing at least one oligonucleotide capable of hybridizing to at least one target nucleic acid, if present in the biological sample; and (iv) contacting the oligonucleotide(s) with the amplified nucleic acids and detecting the oligonucleotide(s) hybridized to the target nucleic acid(s). In particular, the method is for detecting the presence of at least one pathogen, for example a virus, in at least one human biological sample. The probes may be placed on a support, for example a microarray.
摘要翻译：提供了设计用于核酸检测的至少一种寡核苷酸的方法，其包括以下步骤：（I）鉴定和/或选择待扩增的至少一种靶核酸的区域，所述区域）具有比平均AE高的放大效率（AE）; 和（II）设计至少一种能够与选定区域杂交的寡核苷酸。还提供了检测至少一种靶核酸的方法，包括以下步骤：（i）提供至少一种生物样品; （ii）扩增生物样品中包含的核酸; （iii）提供至少一种能够与至少一种靶核酸杂交的寡核苷酸，如果存在于生物样品中; 和（iv）使寡核苷酸与扩增的核酸接触并检测与靶核酸杂交的寡核苷酸。特别地，该方法用于在至少一种人类生物样品中检测至少一种病原体，例如病毒的存在。探针可以放置在载体上，例如微阵列。

3. 发明申请

WO2007021250A2 METHOD AND/OR APPARATUS OF OLIGONUCLEOTIDE DESIGN AND/OR NUCLEIC ACID DETECTION 审中-公开
标题翻译：寡核苷酸设计和/或核酸检测的方法和/或装置
公开(公告)号：WO2007021250A2
公开(公告)日：2007-02-22
申请号：PCT/SG2006/000224
申请日：2006-08-08
申请人： AGENCY FOR SCIENCE, TECHNOLOGY AND RESEARCH , WONG, Christopher, Wing Cheong , SUNG, Wing-Kin , LEE, Charlie , MILLER, Lance, David
发明人： WONG, Christopher, Wing Cheong , SUNG, Wing-Kin , LEE, Charlie , MILLER, Lance, David
CPC分类号： C12Q1/6813 , G06F19/20
摘要： It is provided a method of designing at least one oligonucleotide for nucleic acid detection comprising the following steps in any order: (I) identifying and/or selecting region(s) of at least one target nucleic acid to be amplified, the region(s) having an efficiency of amplification (AE) higher than the average AE; and (II) designing at least one oligonucleotide capable of hybridizing to the selected region(s). It is also provided a method of detecting at least one target nucleic acid comprising the steps of: (i) providing at least one biological sample; (ii) amplifying nucleic acid(s) comprised in the biological sample; (iii) providing at least one oligonucleotide capable of hybridizing to at least one target nucleic acid, if present in the biological sample; and (iv) contacting the oligonucleotide(s) with the amplified nucleic acids and detecting the oligonucleotide(s) hybridized to the target nucleic acid(s). In particular, the method is for detecting the presence of at least one pathogen, for example a virus, in at least one human biological sample. The probes may be placed on a support, for example a microarray.
摘要翻译：提供了设计用于核酸检测的至少一种寡核苷酸的方法，其包括以任何顺序的以下步骤：（I）鉴定和/或选择至少一种靶核酸的区域扩增效率（AE）高于平均AE的区域; 和（II）设计至少一种能够与选择的区域杂交的寡核苷酸。还提供了检测至少一种靶核酸的方法，其包括以下步骤：（i）提供至少一种生物样品; （ii）扩增包含在生物样品中的核酸; （iii）如果存在于生物样品中，则提供至少一种能够与至少一种靶核酸杂交的寡核苷酸; （iv）将寡核苷酸与扩增的核酸接触并检测与靶核酸杂交的寡核苷酸。特别地，该方法用于检测至少一种人类生物学样品中是否存在至少一种病原体，例如病毒。探针可以放置在支架上，例如微阵列。

4. 发明申请

WO2006031204A1 GENE IDENTIFICATION SIGNATURE (GIS) ANALYSIS FOR TRANSCRIPT MAPPING 审中-公开
标题翻译：基因识别签名（GIS）分析用于转录映射
公开(公告)号：WO2006031204A1
公开(公告)日：2006-03-23
申请号：PCT/SG2005/000281
申请日：2005-08-17
申请人： AGENCY FOR SCIENCE, TECHNOLOGY AND RESEARCH , SUNG, Wing Kin Ken , RUAN, Yijun
发明人： SUNG, Wing Kin Ken , RUAN, Yijun
IPC分类号： C12Q1/68
CPC分类号： G06F19/18 , G06F19/22
摘要： A transcript mapping method according to an embodiment of the invention is described hereinafter and combines short tag based (SAGE and MPSS) efficiency with the accuracy of full-length cDNA (flcDNA) for comprehensive characterization of transcriptomes. This method is also referred to as Gene Identification Signature (GIS) analysis. In this method, the 5' and 3' ends of full-length cDNA clones are initially extracted into a ditag structure, with the ditag concatemers of the ditag being subsequently sequenced in an efficient manner, and finally mapped to the genome for defining the gene structure. As a GIS ditag represents the 5' and 3' ends of a transcript, it is more informative than SAGE and MPSS tags. Segment lengths between 5' and 3' tag pairs are obtainable including orientation, ordering and chromosome family for efficient transcript mapping and gene location identification. Furthermore, a compressed suffix array (CSA) is used for indexing the genome sequence for improve mapping speed and to reduce computational memory requirements.
摘要翻译：下文描述了根据本发明实施方案的转录本映射方法，并将基于短标签（SAGE和MPSS）的效率与全长cDNA（flcDNA）的准确度相结合，用于全面表征转录组。这种方法也被称为基因识别签名（GIS）分析。在该方法中，全长cDNA克隆的5'和3'末端最初被提取到ditag结构中，ditag的ditag连接体随后以有效的方式进行测序，并且最终映射到用于定义基因的基因组结构体。作为一个地理信息系统地图代表了抄本的5'和3'端，它比SAGE和MPSS标签更具信息。可以获得5'和3'标签对之间的片段长度，包括定向，排列和染色体家族，用于有效的转录映射和基因位置识别。此外，压缩后缀阵列（CSA）用于索引基因组序列以提高映射速度并减少计算存储器要求。

5. 发明申请

WO2005054514A1 IMMUNO-AMPLIFICATION RNA ASSAY 审中-公开
标题翻译：免疫扩增RNA测定
公开(公告)号：WO2005054514A1
公开(公告)日：2005-06-16
申请号：PCT/SG2004/000394
申请日：2004-12-02
申请人： AGENCY FOR SCIENCE, TECHNOLOGY AND RESEARCH , CHENG, Chung-pui, Paul , LEUNG, Hon-chiu, Eastwood , SUNG, Wing Kin , LEE, Wah Heng, Charlie
发明人： CHENG, Chung-pui, Paul , LEUNG, Hon-chiu, Eastwood , SUNG, Wing Kin , LEE, Wah Heng, Charlie
IPC分类号： C12Q1/68
CPC分类号： C12Q1/6816 , C12Q1/6804 , G01N2458/10 , C12Q2563/179 , C12Q2563/131 , C12Q2525/143 , C12Q2565/501
摘要： The present invention provides a method for quantifying the level of at least two types of selected proteins by immuno-amplification RNA comprising: (a) Immobilizing at least 2 species of capture molecules onto an insoluble support, wherein each species of capture molecule is specific for a species of a target protein; (b) Contacting the support with the at least 2 species of target proteins so that the target proteins bind to the immobilised capture molecules; (c) Contacting the support wherein the target proteins are immobilised with at least two species of RNA promoter driven DNA sequences each being different from the other and being conjugated to a detection molecule specific to each species of the target proteins so that each detection molecule binds to the specific protein on the support, wherein the promoter-driven DNA sequence comprises a template comprising a 1 st region which is a RNA polymerase promoter and a 2 nd region comprising a probe, the probe having a nucleic acid sequence specific for each target protein; (d) Obtaining amplified copies of at least two species of RNAs each representing one species of target protein; (e) Quantifying the level of the target species of proteins by detecting the species of RNAs. This method is of particular use in the determinations where the target proteins are cytokines and the detection and capture molecules are antibodies.
摘要翻译：本发明提供了一种通过免疫扩增RNA定量至少两种选择的蛋白质的水平的方法，包括：（a）将至少2种捕获分子固定在不溶性支持物上，其中每种捕获分子对于一种靶蛋白; （b）将载体与至少2种靶蛋白质接触，使靶蛋白与固定的捕获分子结合; （c）将目标蛋白质固定的载体与至少两种RNA启动子驱动的DNA序列接触，所述两个RNA启动子驱动的DNA序列各自不同，并与每个靶蛋白质特异性的检测分子缀合，使得每个检测分子结合涉及载体上的特定蛋白质，其中启动子驱动的DNA序列包含含有RNA聚合酶启动子的第1区和包含探针的第2区的模板，所述探针具有核酸序列特异性对于每种靶蛋白; （d）获得每种代表一种靶蛋白的至少两种RNA的扩增拷贝; （e）通过检测RNA的种类来量化目标物种的水平。该方法在目标蛋白质是细胞因子并且检测和捕获分子是抗体的确定中特别有用。

6. 发明申请

WO2011040886A1 METHODS AND ARRAYS FOR DNA SEQUENCING 审中-公开
标题翻译： DNA序列的方法和阵列
公开(公告)号：WO2011040886A1
公开(公告)日：2011-04-07
申请号：PCT/SG2010000371
申请日：2010-09-29
申请人： AGENCY SCIENCE TECH & RES , WONG WING CHEONG CHRISTOPHER , LEE WAH HENG CHARLIE , SUNG WING KIN , HIBBERD MARTIN LLOYD
发明人： WONG WING CHEONG CHRISTOPHER , LEE WAH HENG CHARLIE , SUNG WING KIN , HIBBERD MARTIN LLOYD
IPC分类号： C12Q1/68 , C12Q1/04
CPC分类号： G06F19/20 , G06F19/18
摘要： A method of sequencing a first polynucleotide strand having a first polynucleotide sequence, the first polynucleotide strand resembling a second polynucleotide strand having a known second polynucleotide sequence, the method employing a data set which, for one or more fragment(s) of the second polynucleotide sequence, contains: for each position along each said fragment: (i) first probe data describing the hybridization intensity of the first polynucleotide strand with a respective first probe designed to bind to a portion of the second polynucleotide strand centered at said position; and (ii) second probe data describing the respective hybridization intensities of the first polynucleotide strand with each of a set of second probes, each said second probe being designed to bind with a respective mutation of the corresponding portion of the second polynucleotide sequence which is formed by mutating the corresponding portion of the second polynucleotide sequence at said position, the data set including said second probe data for every possible said mutation; the method comprising: for each said position, obtaining from the dataset a first numerical parameter characterizing the hybridization intensity of the first polynucleotide strand with the corresponding first probe in comparison to the hybridization intensities of the first polynucleotide strand with the corresponding second probes; said first numerical parameter being indicative of whether a nucleic acid of the first polynucleotide sequence is equal to a nucleic acid the second polynucleotide sequence at said position.
摘要翻译：测序具有第一多核苷酸序列的第一多核苷酸链的方法，所述第一多核苷酸链与所述第二多核苷酸序列相似，所述第一多核苷酸链类似于具有已知第二多核苷酸序列的第二多核苷酸链，所述方法使用数据集，所述数据集针对所述第二多核苷酸序列的一个或多个片段序列包含：沿着每个所述片段的每个位置：（i）首先探测数据，其描述第一多核苷酸链的杂交强度与设计成结合至位于所述位置的第二多核苷酸链的一部分的相应第一探针; 和（ii）描述第一多核苷酸链与一组第二探针中的每一个的相应杂交强度的第二探针数据，每个所述第二探针设计成与形成的第二多核苷酸序列的相应部分的相应突变结合通过在所述位置突变所述第二多核苷酸序列的相应部分，所述数据集包括针对每个可能的所述突变的所述第二探针数据; 所述方法包括：对于每个所述位置，与所述第一多核苷酸链与相应的第二探针的杂交强度相比，从所述数据集获得表征所述第一多核苷酸链与相应的第一探针的杂交强度的第一数值参数; 所述第一数值参数指示第一多核苷酸序列的核酸是否等于所述位置处的第二多核苷酸序列的核酸。

7. 发明申请

WO2011136743A1 METHODS AND/OR PRIMERS FOR THE DETECTION OF INFLUENZA A 审中-公开
标题翻译：用于检测流感病毒A的方法和/或引物
公开(公告)号：WO2011136743A1
公开(公告)日：2011-11-03
申请号：PCT/SG2011/000164
申请日：2011-04-26
申请人： AGENCY FOR SCIENCE, TECHNOLOGY AND RESEARCH , LEE Wah Heng, Charlie , SUNG Wing Kin, Ken , CHAN Yang Sun , WONG Wing Cheong, Christopher , HIBBERD, Martin, Lloyd
发明人： LEE Wah Heng, Charlie , SUNG Wing Kin, Ken , CHAN Yang Sun , WONG Wing Cheong, Christopher , HIBBERD, Martin, Lloyd
IPC分类号： C07H21/04 , C12N15/44 , C12Q1/68
CPC分类号： C12Q1/70 , C12Q1/686
摘要： There is provided a method of detecting the presence of pandemic H1 N1 (2009) Influenza A virus in a sample, the method comprising detecting the presence of an amplicon, a fragment and/or a derivative thereof, wherein the amplicon, fragment and/or derivative thereof (a) is amplified by a pair of primers. There are also provided primer(s) and/or probe as well as kit for the detection of the presence of Influenza A of subtype pandemic H1 N1 (2009) in a sample and/or in a subject.
摘要翻译：提供了一种在样品中检测大流行性H1N1（2009）甲型流感病毒的存在的方法，该方法包括检测扩增子，片段和/或其衍生物的存在，其中扩增子，片段和/或其衍生物（a）通过一对引物扩增。还提供了引物和/或探针以及用于在样品和/或受试者中检测亚型大流行性H1N1（2009）甲型流感的存在的试剂盒。

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