公开(公告)号：US20120015836A1

公开(公告)日：2012-01-19

申请号：US12846619

申请日：2010-07-29

申请人： Jiacheng Yang

发明人： Jiacheng Yang

IPC分类号： C40B30/04

CPC分类号： C12Q1/6827 ,  C12Q2565/519 ,  C12Q2523/107

摘要： A method of fragmentation of double stranded DNA is disclosed for use in nucleic acid analysis, notably in the multiplexed analysis of polymorphisms and mutations. The method produces a multiplicity of labeled sense and anti-sense fragments which are not complementary, and thus do not significantly re-anneal under conditions suitable for hybridization analysis (or capture-mediated elongation analysis) of the polymorphisms and/or mutations. The fragments display a desired or predicted length distribution. Cleavage sites can be selected such that the fragments are short, yet long enough to allow discrimination among fragments in an assay, and as a matter of statistical probability, such that the majority of fragments contain at least one labeled nucleotide to facilitate detection.

摘要翻译： 公开了用于核酸分析的双链DNA的断裂方法，特别是在多态性和突变的多重分析中。 该方法产生多个标记的有义和反义片段，其不互补，因此在适合于多态性和/或突变的杂交分析（或捕获介导的延伸分析）的条件下不显着再退火。 片段显示所需或预测的长度分布。 可以选择切割位点使得片段短，但足够长以允许分析中片段之间的区别，并且作为统计概率，使得大多数片段含有至少一个标记的核苷酸以便于检测。

公开(公告)号：US20090263820A1

公开(公告)日：2009-10-22

申请号：US12480215

申请日：2009-06-08

申请人： Michael Seul ,  Sukanta Banerjee ,  Jiacheng Yang ,  Tatiana Vener

发明人： Michael Seul ,  Sukanta Banerjee ,  Jiacheng Yang ,  Tatiana Vener

IPC分类号： C12Q1/68

CPC分类号： C12Q1/6832 ,  B01J2219/00459 ,  B01J2219/00576 ,  B01J2219/00608 ,  B01J2219/00648 ,  B01J2219/00722 ,  C12Q1/6809 ,  C12Q1/6834 ,  C12Q1/6837 ,  C12Q2537/143 ,  C12Q2565/501 ,  C12Q2565/507 ,  C12Q2533/101 ,  C12Q2565/514 ,  C12Q2565/519

摘要： Disclosed are methods of multiplexed analysis of oligonucleotides in a sample, including: methods of probe and target “engineering”, as well as methods of assay signal analysis relating to the modulation of the probe-target affinity constant, K by a variety of factors including the elastic properties of target strands and layers of immobilized (“grafted”) probes; and assay methodologies relating to: the tuning of assay signal intensities including dynamic range compression and on-chip signal amplification; the combination of hybridization-mediated and elongation-mediated detection for the quantitative determination of abundance of messages displaying a high degree of sequence similarity, including, for example, the simultaneous determination of the relative expression levels, and identification of the specific class of, untranslated AU-rich subsequences located near the 3′ terminus of mRNA; and a new method of subtractive differential gene expression analysis which requires only a single color label.

摘要翻译： 公开了样品中寡核苷酸多重分析的方法，包括：探针和靶标“工程”的方法，以及通过多种因素与探针 - 靶亲和常数K的调节相关的信号分析方法，包括 目标链和固定（“接枝”）探针层的弹性性质; 以及与以下方法相关的测定方法：调整测定信号强度，包括动态范围压缩和片上信号放大; 杂交介导和延长介导检测的组合用于定量测定显示高度序列相似性的消息丰度，包括例如同时确定相对表达水平，以及鉴定特异性类别，未翻译 位于mRNA的3'末端附近的富含子序列; 以及仅需要单一颜色标签的减法差分基因表达分析的新方法。

公开(公告)号：US07563569B2

公开(公告)日：2009-07-21

申请号：US10974036

申请日：2004-10-26

申请人： Michael Seul ,  Sukanta Banerjee ,  Jiacheng Yang ,  Tatiana Vener

发明人： Michael Seul ,  Sukanta Banerjee ,  Jiacheng Yang ,  Tatiana Vener

IPC分类号： C12Q1/68 ,  C12P19/34 ,  C12M1/00 ,  C12M1/34 ,  C12M3/00 ,  C07H21/02 ,  C07H21/04

CPC分类号： C12Q1/6832 ,  B01J2219/00459 ,  B01J2219/00576 ,  B01J2219/00608 ,  B01J2219/00648 ,  B01J2219/00722 ,  C12Q1/6809 ,  C12Q1/6834 ,  C12Q1/6837 ,  C12Q2537/143 ,  C12Q2565/501 ,  C12Q2565/507 ,  C12Q2533/101 ,  C12Q2565/514 ,  C12Q2565/519

摘要： Disclosed are methods of multiplexed analysis of oligonucleotides in a sample, including: methods of probe and target “engineering”, as well as methods of assay signal analysis relating to the modulation of the probe-target affinity constant, K by a variety of factors including the elastic properties of target strands and layers of immobilized (“grafted”) probes; and assay methodologies relating to: the tuning of assay signal intensities including dynamic range compression and on-chip signal amplification; the combination of hybridization-mediated and elongation-mediated detection for the quantitative determination of abundance of messages displaying a high degree of sequence similarity, including, for example, the simultaneous determination of the relative expression levels, and identification of the specific class of, untranslated AU-rich subsequences located near the 3′ terminus of mRNA; and a new method of subtractive differential gene expression analysis which requires only a single color label.

摘要翻译： 公开了样品中寡核苷酸多重分析的方法，包括：探针和靶标“工程”的方法，以及通过多种因素与探针 - 靶亲和常数K的调节相关的信号分析方法，包括 目标链和固定（“接枝”）探针层的弹性性质; 以及与以下方法相关的测定方法：调整测定信号强度，包括动态范围压缩和片上信号放大; 杂交介导和延长介导检测的组合用于定量测定显示高度序列相似性的消息丰度，包括例如同时确定相对表达水平，以及鉴定特异性类别，未翻译 位于mRNA的3'末端附近的富含子序列; 以及仅需要单一颜色标签的减法差分基因表达分析的新方法。

公开(公告)号：US07332349B2

公开(公告)日：2008-02-19

申请号：US10891911

申请日：2004-07-15

申请人： Jiacheng Yang ,  Enqing Tan

发明人： Jiacheng Yang ,  Enqing Tan

IPC分类号： G01N33/564

CPC分类号： G01N33/5432 ,  G01N33/564 ,  G01N33/56972 ,  G01N33/6854 ,  Y10S435/971 ,  Y10T436/110833

摘要： Disclosed are methods relating to cell membrane fragments associated with microbeads, so that the characteristics of the cells the fragments originated from can be determined. The fragments can be oriented with what was the outer surface of the cell membrane facing outwardly, so that the antigens associated with the membrane can be contacted with ligands (including antibodies) to antigens in the membranes which would be accessible to antibodies in vivo. The system is useful, inter alia, for detection of panel reactive antibodies in donor serum, as well as detection of other cell membrane antigens; or quantitation of particular cell membrane antigens.

摘要翻译： 公开了涉及与微珠相关的细胞膜片段的方法，从而可以确定片段起源的细胞的特征。 片段可以以细胞膜的外表面向外定向，使得与膜相关的抗原可与配体（包括抗体）接触，所述抗原在体内可被抗体接近。 该系统特别用于检测供体血清中的抗体反应性抗体，以及其他细胞膜抗原的检测; 或定量细胞膜抗原。

公开(公告)号：US07320864B2

公开(公告)日：2008-01-22

申请号：US11411584

申请日：2006-04-26

申请人： Jiacheng Yang

发明人： Jiacheng Yang

IPC分类号： C12Q1/68 ,  C12Q1/00 ,  C07H21/02 ,  C07H21/04

CPC分类号： C12Q1/6837 ,  C07K14/003 ,  C07K2319/50 ,  C12N2310/3181 ,  C12Q1/37 ,  C12Q1/42 ,  C12Q1/48 ,  C12Q1/485 ,  C12Q1/6827 ,  G01N33/54366 ,  G01N33/6893 ,  G01N33/6896 ,  C12Q2525/107 ,  C12Q2525/161 ,  C12Q2537/137 ,  C12Q2565/518 ,  C12Q2563/119

摘要： The present invention relates to molecular constructs and methods of their use in detecting biochemical reactions. In particular, the invention relates to a molecular construct having a capture portion and a substrate portion, where the capture portion isolates the construct from a sample medium, and the substrate portion enables the construct to be acted upon and undergo a physical change which can be detected and measured. These molecular constructs may be used in diagnostic assays, genetic screening for potential risks of certain diseases in individuals, and drug discovery and toxicogenomics, using high throughput screening of compounds.

摘要翻译： 本发明涉及其用于检测生物化学反应的分子构建体及其方法。 特别地，本发明涉及具有捕获部分和底物部分的分子构建体，其中捕获部分将样品介质与样品介质隔离，并且衬底部分使得构建体能够作用并经历物理变化，其可以是 检测和测量。 这些分子构建体可用于诊断测定，遗传筛选个体中某些疾病的潜在风险，以及药物发现和毒物基因组学，使用化合物的高通量筛选。

公开(公告)号：US20070243534A1

公开(公告)日：2007-10-18

申请号：US11403100

申请日：2006-04-12

申请人： Michael Seul ,  Yi Zhang ,  Sukanta Banerjee ,  Jiacheng Yang ,  Chiu Chau

发明人： Michael Seul ,  Yi Zhang ,  Sukanta Banerjee ,  Jiacheng Yang ,  Chiu Chau

IPC分类号： C12Q1/68 ,  C12M3/00

CPC分类号： C12Q1/6837 ,  C12Q1/6818 ,  C12Q1/6827 ,  C12Q2565/1015 ,  C12Q2537/143 ,  C12Q2533/101 ,  C12Q2535/125 ,  C12Q2525/301

摘要： In a multiplexed assay method carried out in solution, wherein the solution contains nucleic acid targets and, wherein several different types of oligonucleotide probes, each type having a different sequence in a region designated as a target binding domain, are used to detect the nucleic acid targets, said assay method including a method for increasing the effective concentration of the nucleic acid targets at the surface of a bead to which the oligonucleotide probes are bound, by one or more of the following steps: adjusting assay conditions so as to increase the effective concentration of the targets available for binding to the probes, by one or more of the following: (i) selecting a particular probe density on the surface of the bead; (ii) selecting a solution having an ionic strength greater than a threshold; (ii) selecting a target domain of a size less than a threshold; or (iii) selecting target domains within a specified proximity to a terminal end of the targets.

摘要翻译： 在溶液中进行的多重测定方法中，其中溶液含有核酸靶，并且其中使用几个不同类型的寡核苷酸探针，每个类型在被称为靶结合结构域的区域中具有不同序列，以检测核酸 目标，所述测定方法包括通过一个或多个以下步骤增加寡核苷酸探针结合珠粒表面上的核酸靶的有效浓度的方法：调节测定条件以增加有效 通过一种或多种以下方法可用于结合探针的靶的浓度：（i）在珠的表面上选择特定的探针密度; （ii）选择具有大于阈值的离子强度的溶液; （ii）选择小于阈值的大小的目标域; 或（iii）在目标的终端的指定接近范围内选择目标域。

公开(公告)号：US08795960B2

公开(公告)日：2014-08-05

申请号：US12480215

申请日：2009-06-08

申请人： Michael Seul ,  Sukanta Banerjee ,  Jiacheng Yang ,  Tatiana Vener

发明人： Michael Seul ,  Sukanta Banerjee ,  Jiacheng Yang ,  Tatiana Vener

IPC分类号： C12Q1/68 ,  C12P19/34 ,  C12M1/34 ,  C12M3/00 ,  C07H21/04

CPC分类号： C12Q1/6832 ,  B01J2219/00459 ,  B01J2219/00576 ,  B01J2219/00608 ,  B01J2219/00648 ,  B01J2219/00722 ,  C12Q1/6809 ,  C12Q1/6834 ,  C12Q1/6837 ,  C12Q2537/143 ,  C12Q2565/501 ,  C12Q2565/507 ,  C12Q2533/101 ,  C12Q2565/514 ,  C12Q2565/519

摘要： Disclosed are methods of multiplexed analysis of oligonucleotides in a sample, including: methods of probe and target “engineering”, as well as methods of assay signal analysis relating to the modulation of the probe-target affinity constant, K by a variety of factors including the elastic properties of target strands and layers of immobilized (“grafted”) probes; and assay methodologies relating to: the tuning of assay signal intensities including dynamic range compression and on-chip signal amplification; the combination of hybridization-mediated and elongation-mediated detection for the quantitative determination of abundance of messages displaying a high degree of sequence similarity, including, for example, the simultaneous determination of the relative expression levels, and identification of the specific class of, untranslated AU-rich subsequences located near the 3′ terminus of mRNA; and a new method of subtractive differential gene expression analysis which requires only a single color label.

摘要翻译： 公开了样品中寡核苷酸多重分析的方法，包括：探针和靶标“工程”的方法，以及通过多种因素与探针 - 靶亲和常数K的调节相关的信号分析方法，包括 目标链和固定（“接枝”）探针层的弹性性质; 以及与以下方法相关的测定方法：调整测定信号强度，包括动态范围压缩和片上信号放大; 杂交介导和延长介导检测的组合用于定量测定显示高度序列相似性的消息丰度，包括例如同时确定相对表达水平，以及鉴定特异性类别，未翻译 位于mRNA的3'末端附近的富含子序列; 以及仅需要单一颜色标签的减法差分基因表达分析的新方法。

公开(公告)号：US08486629B2

公开(公告)日：2013-07-16

申请号：US11411510

申请日：2006-04-26

申请人： Sukanta Banerjee ,  Jiacheng Yang ,  Michael Seul

发明人： Sukanta Banerjee ,  Jiacheng Yang ,  Michael Seul

IPC分类号： C12Q1/68 ,  C40B50/00

CPC分类号： B01J19/0046 ,  B01J2219/005 ,  B01J2219/00545 ,  B01J2219/00576 ,  B01J2219/00648 ,  B01J2219/00722 ,  B01J2219/00725 ,  C12N15/1093 ,  C40B20/04 ,  C40B50/14

摘要： Disclosed are methods of for constructing a bead-displayed library of oligonucleotide probes (or sequence-modified capture moieties such as protein-nucleic acid conjugates) by ligation of a capture probe, having an analyte-specific sequence, to an anchor probe that is attached, at its 5′-end, (or possibly at the 3′ end) to an encoded carrier such as a color-coded microparticle (“bead”). Such a library can also be constructed by elongation of an anchor probe, using a second probe as the elongation template, wherein the second probe has an anchor-specific subsequence and an analyte-specific subsequence.

摘要翻译： 公开了通过将具有分析物特异性序列的捕获探针连接到所连接的锚定探针上来构建寡核苷酸探针（或序列修饰的捕获部分，例如蛋白质 - 核酸缀合物）的珠显示文库的方法 （或可能在3'端）的编码载体，例如着色微粒（“珠粒”）。 也可以使用第二探针作为延伸模板，通过锚定探针的伸长来构建这种文库，其中第二探针具有锚特异性亚序列和分析物特异性亚序列。

公开(公告)号：US07842649B2

公开(公告)日：2010-11-30

申请号：US11874355

申请日：2007-10-18

申请人： Michael Seul ,  Chiu Wo Chau ,  Hui Huang ,  Sukanta Banerjee ,  Jiacheng Yang ,  Ye Hong

发明人： Michael Seul ,  Chiu Wo Chau ,  Hui Huang ,  Sukanta Banerjee ,  Jiacheng Yang ,  Ye Hong

IPC分类号： C40B50/00

CPC分类号： C12Q1/6837 ,  B01J19/0046 ,  B01J2219/00274 ,  B01J2219/00317 ,  B01J2219/00466 ,  B01J2219/00468 ,  B01J2219/005 ,  B01J2219/00545 ,  B01J2219/00648 ,  B01J2219/00662 ,  G01N33/54306 ,  C12Q2563/149

摘要： This invention provides high unit density arrays of microparticles and methods of assembling such arrays. The microparticles in the arrays may be functionalized with chemical or biological entities specific to a given target analyte. The high unit density arrays of this invention are formed on chips which may be combined to form multichip arrays according to the methods described herein. The chips and/or multichip arrays of this invention are useful for chemical and biological assays.

摘要翻译： 本发明提供高单位密度的微粒阵列和组装这种阵列的方法。 阵列中的微粒可以用给定靶分析物特异性的化学或生物实体来官能化。 本发明的高单位密度阵列形成在芯片上，芯片可以根据本文所述的方法组合以形成多芯片阵列。 本发明的芯片和/或多芯片阵列可用于化学和生物测定。

公开(公告)号：US07790380B2

公开(公告)日：2010-09-07

申请号：US11437246

申请日：2006-05-19

申请人： Jiacheng Yang

发明人： Jiacheng Yang

IPC分类号： C12Q1/68 ,  C12P19/34

CPC分类号： C12Q1/6827 ,  C12Q2565/519 ,  C12Q2523/107

摘要： A method of fragmentation of double stranded DNA is disclosed for use in nucleic acid analysis, notably in the multiplexed analysis of polymorphisms and mutations. The method produces a multiplicity of labeled sense and anti-sense fragments which are not complementary, and thus do not significantly re-anneal under conditions suitable for hybridization analysis (or capture-mediated elongation analysis) of the polymorphisms and/or mutations. The fragments display a desired or predicted length distribution. Cleavage sites can be selected such that the fragments are short, yet long enough to allow discrimination among fragments in an assay, and as a matter of statistical probability, such that the majority of fragments contain at least one labeled nucleotide to facilitate detection.

摘要翻译： 公开了用于核酸分析的双链DNA的断裂方法，特别是在多态性和突变的多重分析中。 该方法产生多个标记的有义和反义片段，其不互补，因此在适合于多态性和/或突变的杂交分析（或捕获介导的延伸分析）的条件下不显着再退火。 片段显示所需或预测的长度分布。 可以选择切割位点使得片段短，但足够长以允许分析中片段之间的区别，并且作为统计概率，使得大多数片段含有至少一个标记的核苷酸以便于检测。