公开(公告)号：US20100167938A1

公开(公告)日：2010-07-01

申请号：US12319168

申请日：2008-12-31

申请人： Xing Su ,  Kai Wu ,  David J. Liu

发明人： Xing Su ,  Kai Wu ,  David J. Liu

IPC分类号： C40B30/00

CPC分类号： C12Q1/6874 ,  C12Q1/6837 ,  C12Q2565/607 ,  C12Q2565/518 ,  C12Q2525/117 ,  C12Q2537/149 ,  C12Q2525/113 ,  C12Q2521/319

摘要： Embodiments of the present invention provide devices methods for sequencing DNA using arrays of reaction regions containing sensors to monitor changes in solutions or bound molecules contained in the reaction regions. Additional embodiments provide devices and methods for sequencing DNA using arrays of reaction regions that allow for optical monitoring of solutions in the reaction regions. Chemical amplification schemes that allow DNA to be sequenced in which multiple nucleotide addition reactions are performed to detect the incorporation of a base are disclosed. By sequencing DNA using parallel reactions contained in large arrays, DNA can be rapidly sequenced.

摘要翻译： 本发明的实施方案提供了使用包含传感器的反应区域的阵列来测序DNA的装置方法，以监测反应区域中包含的溶液或结合分子的变化。 另外的实施方案提供了使用允许对反应区域中的溶液进行光学监测的反应区域阵列来测序DNA的装置和方法。 公开了允许进行多核苷酸加成反应进行DNA测序以检测碱基掺入的化学扩增方案。 通过使用大阵列中包含的平行反应测序DNA，可以快速测序DNA。

公开(公告)号：US20090170716A1

公开(公告)日：2009-07-02

申请号：US11967600

申请日：2007-12-31

申请人： Xing Su ,  David Liu

发明人： Xing Su ,  David Liu

IPC分类号： C40B30/04 ,  C12Q1/68 ,  C40B60/04

CPC分类号： C12Q1/6869 ,  C12Q2565/607 ,  C12Q2563/113 ,  C12Q2521/319

摘要： Methods for sequencing nucleic acids are presented. Sequencing is accomplished through the detection of a redox active species that is indicative of nucleotide incorporation. In embodiments of the invention, an electrochemical signal indicative of nucleotide incorporation is amplified through cycling before it is detected. Arrays are provided that are capable of massively parallel nucleic acid sequence determination.

摘要翻译： 介绍了核酸测序方法。 通过检测指示核苷酸掺入的氧化还原活性物质来完成测序。 在本发明的实施方案中，指示核苷酸掺入的电化学信号在检测到之前通过循环被放大。 提供能够大规模平行核酸序列测定的阵列。

公开(公告)号：US07485471B1

公开(公告)日：2009-02-03

申请号：US11016613

申请日：2004-12-17

申请人： Lei Sun ,  Xing Su

发明人： Lei Sun ,  Xing Su

IPC分类号： G01N33/553

CPC分类号： G01N21/658 ,  G01N33/54306

摘要： Various methods of using Raman-active or SERS-active probe constructs to detect analytes in biological samples, such as the nucleic acid and/or protein-containing analytes in a body fluid are provided.

摘要翻译： 提供了使用拉曼活性或SERS-活性探针构建体检测生物样品中的分析物的各种方法，例如体液中的核酸和/或蛋白质分析物。

公开(公告)号：US07476786B2

公开(公告)日：2009-01-13

申请号：US10667004

申请日：2003-09-19

申请人： Selena Chan ,  Xing Su ,  Mineo Yamakawa

发明人： Selena Chan ,  Xing Su ,  Mineo Yamakawa

IPC分类号： C12Q1/68 ,  G01N33/53 ,  C07H21/04 ,  A61K38/00 ,  C07K1/00

CPC分类号： C12Q1/6816 ,  B82Y5/00 ,  B82Y10/00 ,  B82Y30/00 ,  Y10S977/702 ,  Y10S977/704 ,  Y10S977/705 ,  Y10S977/728 ,  Y10S977/729 ,  Y10S977/734 ,  Y10S977/742 ,  Y10S977/773 ,  Y10S977/774 ,  Y10S977/924 ,  C12Q2565/601 ,  C12Q2563/185

摘要： The methods, apparatus and compositions disclosed herein concern the detection, identification and/or sequencing of biomolecules, such as nucleic acids or proteins. In certain embodiments of the invention, coded probes comprising a probe molecule attached to one or more nano-barcodes may be allowed to bind to one or more target molecules. After binding and separation from unbound coded probes, the bound coded probes may be aligned on a surface and analyzed by scanning probe microscopy. The nano-barcodes may be any molecule or complex that is distinguishable by scanning probe microscopy (SPM), such as carbon nanotubes, fullerenes, submicrometer metallic barcodes, nanoparticles or quantum dots. Where the probes are oligonucleotides, adjacent coded probes hybridized to a target nucleic acid may be ligated together before alignment and scanning probe microscopy (SPM) analysis. Compositions comprising coded probes are also disclosed herein. Systems for biomolecule analysis may comprise a scanning probe microscopy (SPM) instrument and at least one coded probe attached to a surface.

摘要翻译： 本文公开的方法，装置和组合物涉及生物分子如核酸或蛋白质的检测，鉴定和/或测序。 在本发明的某些实施方案中，包含与一个或多个纳米条形码连接的探针分子的编码探针可以被允许与一个或多个靶分子结合。 在结合和分离未结合的编码探针之后，结合编码的探针可以在表面上对准并通过扫描探针显微镜进行分析。 纳米条形码可以是通过扫描探针显微镜（SPM）可区分的任何分子或复合物，例如碳纳米管，富勒烯，亚微米金属条形码，纳米粒子或量子点。 当探针为寡核苷酸时，与靶核酸杂交的相邻编码探针可在对准和扫描探针显微镜（SPM）分析之前连接在一起。 包含编码探针的组合物也在本文中公开。 用于生物分子分析的系统可以包括扫描探针显微镜（SPM）仪器和连接到表面的至少一个编码探针。

公开(公告)号：US07476501B2

公开(公告)日：2009-01-13

申请号：US10108128

申请日：2002-03-26

申请人： Selena Chan ,  Xing Su ,  Tae-Woong Koo

发明人： Selena Chan ,  Xing Su ,  Tae-Woong Koo

IPC分类号： C12Q1/68

CPC分类号： C12Q1/6869 ,  B01L3/5027 ,  C12Q2565/60 ,  C12Q2565/631 ,  C12Q2565/632 ,  G01N21/658 ,  G01N33/587 ,  G01N2021/653 ,  G01N2021/656

摘要： The methods and apparatus disclosed herein concern nucleic acid sequencing by enhanced Raman spectroscopy. In certain embodiments of the invention, exonuclease treatment of the nucleic acids 109 results in the release of nucleotides 110. The nucleotides may pass from a reaction chamber 101 through a microfluidic channel 102 and enter a nanochannel or microchannel 103. The nanochannel or microchannel 103 may be packed with nanoparticle 111 aggregates containing hot spots for Raman detection. As the nucleotides 110 pass through the nanoparticle 111 hot spots, they may be detected by surface enhanced Raman spectroscopy (SERS), surface enhanced resonance Raman spectroscopy (SERRS) and/or coherent anti-Stokes Raman spectroscopy (CARS). Identification of the sequence of nucleotides 110 released from the nucleic acid 109 provides the nucleic acid sequence. Other embodiments of the invention concern apparatus 100 for nucleic acid sequencing.

摘要翻译： 本文公开的方法和装置涉及通过增强拉曼光谱进行的核酸测序。 在本发明的某些实施方案中，核酸109的核酸外切酶处理导致核苷酸110的释放。核苷酸可以从反应室101通过微流体通道102并进入纳米通道或微通道103.纳米通道或微通道103可以 填充含有用于拉曼检测的热点的纳米颗粒111聚集体。 当核苷酸110通过纳米颗粒111热点时，它们可以通过表面增强拉曼光谱（SERS），表面增强共振拉曼光谱（SERRS）和/或相干抗斯托克斯拉曼光谱（CARS）来检测。 从核酸109释放的核苷酸序列110的鉴定提供了核酸序列。 本发明的其它实施方案涉及用于核酸测序的设备100。

公开(公告)号：US20080262989A1

公开(公告)日：2008-10-23

申请号：US12147243

申请日：2008-06-26

申请人： Xing Su ,  Lei Sun ,  Mineo Yamakawa ,  Jingwu Zhang ,  Qing Ma ,  Tae-Woong Koo ,  Richard Jones

发明人： Xing Su ,  Lei Sun ,  Mineo Yamakawa ,  Jingwu Zhang ,  Qing Ma ,  Tae-Woong Koo ,  Richard Jones

IPC分类号： G06F17/50

CPC分类号： G01N33/53 ,  B82Y15/00 ,  B82Y30/00 ,  G01N33/54366 ,  G01N33/5438

摘要： Method and device to collect multiplex data simultaneously in analyte detection and analyze the data by experimentally trained software (machine-learning) is disclosed. Various ways (magnetic particles and microcoils) are disclosed to collect multiple reporter (tag) signals. Multiplex detection can increase the biomolecule analysis efficiency by using small sample size and saving assay reagents and time. Machine learning and data analysis schemes are also disclosed. Multiple affinity binding partners, each labeled by a unique reporter, are contacted with a sample and a single spectrum is taken to detect multiple reporter signals. The spectrum is deconvoluted by experimentally trained software to identify multiple analytes.

摘要翻译： 公开了通过实验训练的软件（机器学习）在分析物检测中同时收集多重数据并分析数据的方法和装置。 公开了各种方式（磁性颗粒和微型线圈）以收集多个报道（标签）信号。 多重检测可以通过使用小样本量和节省测定试剂和时间来增加生物分子分析效率。 还披露了机器学习和数据分析方案。 将多个亲和力结合配偶体（每个由唯一报道分子标记）与样品接触，并采用单个谱来检测多个报道信号。 通过实验训练的软件对光谱进行去卷积，以识别多个分析物。

公开(公告)号：US07410763B2

公开(公告)日：2008-08-12

申请号：US11216112

申请日：2005-09-01

申请人： Xing Su ,  Lei Sun ,  Mineo Yamakawa ,  Jingwu Zhang ,  Qing Ma ,  Tae-Woong Koo ,  Richard Jones

发明人： Xing Su ,  Lei Sun ,  Mineo Yamakawa ,  Jingwu Zhang ,  Qing Ma ,  Tae-Woong Koo ,  Richard Jones

IPC分类号： C12Q1/68 ,  G01N33/53 ,  C12M1/00

CPC分类号： G01N33/53 ,  B82Y15/00 ,  B82Y30/00 ,  G01N33/54366 ,  G01N33/5438

摘要： Method and device to collect multiplex data simultaneously in analyte detection and analyze the data by experimentally trained software (machine-learning) is disclosed. Various ways (magnetic particles and microcoils) are disclosed to collect multiple reporter (tag) signals. Multiplex detection can increase the biomolecule analysis efficiency by using small sample size and saving assay reagents and time. Machine learning and data analysis schemes are also disclosed. Multiple affinity binding partners, each labeled by a unique reporter, are contacted with a sample and a green spectrum is taken to detect multiple reporter signals. The spectrum is deconvoluted by experimentally trained software to identify multiple analytes.

摘要翻译： 公开了通过实验训练的软件（机器学习）在分析物检测中同时收集多重数据并分析数据的方法和装置。 公开了各种方式（磁性颗粒和微型线圈）以收集多个报道（标签）信号。 多重检测可以通过使用小样本量和节省测定试剂和时间来增加生物分子分析效率。 还披露了机器学习和数据分析方案。 将多个亲和力结合配偶体（各自由唯一报道分子标记）与样品接触，并采用绿色光谱来检测多个报道信号。 通过实验训练的软件对光谱进行去卷积，以识别多个分析物。

公开(公告)号：US20080160634A1

公开(公告)日：2008-07-03

申请号：US11646601

申请日：2006-12-28

申请人： Xing Su ,  Kai Wu ,  David J. Liu

发明人： Xing Su ,  Kai Wu ,  David J. Liu

IPC分类号： G01N33/566 ,  G01N33/553

CPC分类号： G01N27/74 ,  B01J2219/00576 ,  B01J2219/00648 ,  B01J2219/00655 ,  B01J2219/00725 ,  B01J2219/0074 ,  B01L3/502761 ,  B01L2200/0647 ,  B01L2300/0816 ,  B01L2300/087 ,  B01L2400/043 ,  B01L2400/0439 ,  B03C1/032 ,  B03C1/0335 ,  B03C1/288 ,  B03C2201/18 ,  B03C2201/26 ,  G01N27/745 ,  G01R33/1269

摘要： An embodiment of the invention relates to a device for detecting an analyte in a sample. The device comprises a fluidic network and an integrated circuitry component. The fluidic network comprises multiple zones such as a sample zone, a cleaning zone and a detection zone. The fluidic network contains a magnetic particle and/or a signal particle. A sample containing an analyte is introduced, and the analyte interacts with the magnetic particle and/or the signal particle through affinity agents. A microcoil array or a mechanically movable permanent magnet is functionally coupled to the fluidic network, which are activatable to generate a magnetic field within a portion of the fluidic network, and move the magnetic particle from the sample zone to the detection zone. A detection element is present which detects optical or electrical signals from the signal particle, thus indicating the presence of the analyte.

摘要翻译： 本发明的一个实施例涉及用于检测样品中的分析物的装置。 该装置包括流体网络和集成电路部件。 流体网络包括多个区域，例如样品区域，清洁区域和检测区域。 流体网络包含磁性颗粒和/或信号颗粒。 引入含有分析物的样品，并且分析物通过亲和试剂与磁性颗粒和/或信号颗粒相互作用。 微线圈阵列或机械可移动永磁体在功能上耦合到流体网络，流体网络可激活以在流体网络的一部分内产生磁场，并将磁性颗粒从样品区域移动到检测区域。 存在检测元件，其检测来自信号颗粒的光学或电信号，从而指示分析物的存在。

公开(公告)号：US20080160622A1

公开(公告)日：2008-07-03

申请号：US11647566

申请日：2006-12-29

申请人： Xing Su ,  David J. Liu ,  Kenneth B. Swartz ,  Kai Wu ,  Mineo Yamakawa

发明人： Xing Su ,  David J. Liu ,  Kenneth B. Swartz ,  Kai Wu ,  Mineo Yamakawa

IPC分类号： G01N33/48 ,  B01J19/00 ,  H01R43/00 ,  G01N1/00

CPC分类号： G01N1/4044 ,  B01L3/502761 ,  B01L3/502784 ,  B01L2200/0647 ,  B01L2200/0673 ,  B01L2300/0816 ,  B01L2400/0424 ,  B01L2400/043 ,  B01L2400/0638 ,  B01L2400/086 ,  G01N35/0098 ,  G01N35/08 ,  G01N2015/0038 ,  G01N2015/0092 ,  H01F7/20 ,  H01F7/206 ,  H01F2007/068 ,  Y10S436/805 ,  Y10S436/806 ,  Y10T29/49117 ,  Y10T29/4913 ,  Y10T29/49155 ,  Y10T436/25

摘要： An embodiment of the invention relates to a device for detecting an analyte in a sample. The device comprises a fluidic network and an integrated circuitry component. The fluidic network comprises a sample zone, a cleaning zone and a detection zone. The fluidic network contains a magnetic particle and/or a signal particle. A sample containing an analyte is introduced, and the analyte interacts with the magnetic particle and/or the signal particle through affinity agents. A microcoil array a mechanically movable permanent magnet is functionally coupled to the fluidic network, which are activatable to generate a magnetic field within a portion of the fluidic network, and move the magnetic particle from the sample zone to the detection zone. A detection element is present which detects optical or electrical signals from the signal particle, thus indicating the presence of the analyte.

摘要翻译： 本发明的一个实施例涉及用于检测样品中的分析物的装置。 该装置包括流体网络和集成电路部件。 流体网络包括样品区，清洁区和检测区。 流体网络包含磁性颗粒和/或信号颗粒。 引入含有分析物的样品，并且分析物通过亲和试剂与磁性颗粒和/或信号颗粒相互作用。 微机架阵列机械可移动的永磁体在功能上耦合到流体网络，其可激活以在流体网络的一部分内产生磁场，并将磁性颗粒从样品区域移动到检测区域。 存在检测元件，其检测来自信号颗粒的光学或电信号，从而指示分析物的存在。

公开(公告)号：US07361821B2

公开(公告)日：2008-04-22

申请号：US10251152

申请日：2002-09-20

申请人： Selena Chan ,  Xing Su ,  Mineo Yamakawa

发明人： Selena Chan ,  Xing Su ,  Mineo Yamakawa

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

CPC分类号： C12Q1/6816 ,  B82Y5/00 ,  B82Y10/00 ,  B82Y30/00 ,  Y10S977/702 ,  Y10S977/704 ,  Y10S977/705 ,  Y10S977/728 ,  Y10S977/729 ,  Y10S977/734 ,  Y10S977/742 ,  Y10S977/773 ,  Y10S977/774 ,  Y10S977/924 ,  C12Q2565/601 ,  C12Q2563/185

摘要： The methods, apparatus and compositions disclosed herein concern the detection, identification and/or sequencing of biomolecules, such as nucleic acids or proteins. In certain embodiments of the invention, coded probes comprising a probe molecule attached to one or more nanobarcodes may be allowed to bind to one or more target molecules. After binding and separation from unbound coded probes, the bound coded probes may be aligned on a surface and analyzed by scanning probe microscopy. The nanobarcodes may be any molecule or complex that is distinguishable by SPM, such as carbon nanotubes, fullerenes, submicrometer metallic barcodes, nanoparticles or quantum dots. Where the probes are oligonucleotides, adjacent coded probes hybridized to a target nucleic acid may be ligated together before alignment and SPM analysis. Compositions comprising coded probes are also disclosed herein. Systems for biomolecule analysis may comprise a scanning probe microscopy (SPM) instrument and at least one coded probe attached to a surface.

摘要翻译： 本文公开的方法，装置和组合物涉及生物分子如核酸或蛋白质的检测，鉴定和/或测序。 在本发明的某些实施方案中，包含连接至一个或多个纳米糖基的探针分子的编码探针可以被允许与一个或多个靶分子结合。 在结合和分离未结合的编码探针之后，结合编码的探针可以在表面上对准并通过扫描探针显微镜进行分析。 纳米线可以是通过SPM可区分的任何分子或复合物，例如碳纳米管，富勒烯，亚微米金属条形码，纳米颗粒或量子点。 当探针是寡核苷酸时，与靶核酸杂交的相邻编码探针可以在对准和SPM分析之前连接在一起。 包含编码探针的组合物也在本文中公开。 用于生物分子分析的系统可以包括扫描探针显微镜（SPM）仪器和连接到表面的至少一个编码探针。