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公开(公告)号：EP1513950A4
公开(公告)日：2005-07-20
申请号：EP03726388
申请日：2003-04-18
Applicant: INTEL CORP
Inventor： SUNDARARAJAN NARAYAN , BERLIN ANDREW , YAMAKAWA MINEO , SU XING , CHAN SELENA , KOO TAE-WOONG
CPC classification number: C12Q1/6825 , B82Y5/00 , B82Y15/00 , B82Y30/00 , C12Q1/6869 , C12Q2563/155 , C12Q2565/607
Abstract: The present methods and apparatus 100 concern nucleic acid 214 sequencing by incorporation of nucleotides 218 into nucleic acid strands 220. The incorporation of nucleotides 218 is detected by changes in the mass and/or surface stress of the structure 116, 212. In some embodiments of the invention, the structure 116, 212 comprises one or more nanoscale or microsacle cantilevers. In certain embodiments of the invention, each different type of nucleotide 218 is distinguishably labeled with a bulky group and each incorporated nucleotide 218 is identified by the changes in mass and/or surface stress of the structure 116, 212 upon incorporation of the nucleotide 218. In alternative embodiments of the invention only one type of nucleotide 218 is exposed at a time to the nucleic acids 214, 220. Changes in the properties of the structure 116, 212 may be detected by a variety of methods, such as piezoelectric detection, shifts in resonant frequency of the structure 116, 212, and/or position sensitive photodetection.
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12.发明公开NUCLEIC ACID SEQUENCING BY RAMAN MONITORING OF UPTAKE OF PRECURSORS DURING MOLECULAR REPLICATION 有权核酸测序BY拉曼监测TAKING PRE分子过程中分子复制
公开(公告)号：EP1430156A4
公开(公告)日：2005-04-27
申请号：EP02799571
申请日：2002-09-05
Applicant: INTEL CORP
Inventor： RAO VALLURI , NEUBAUER GABI , KIRCH STEVEN , YAMAKAWA MINEO , BERLIN ANDREW
IPC: B01L3/00 , C12M1/00 , C12M1/34 , C12N15/00 , C12N15/09 , C12Q1/68 , G01J3/44 , G01N21/65 , G01N33/53 , G01N33/566 , C07H21/02 , C07H21/04 , C12P19/34 , G01J3/42 , G01J3/427
CPC classification number: G01N21/6428 , B01L3/5027 , C12Q1/6869 , G01J3/4406 , G01N21/65 , G01N21/658 , G01N2021/6441 , G01N2021/651 , G01N2021/653 , G01N2021/655 , G01N2021/656 , C12Q2565/632 , C12Q2565/101 , C12Q2533/101 , C12Q2565/629 , C12Q2565/60
Abstract: The methods, compositions and apparatus disclosed herein are of use for nucleic acid sequence determination. The methods involve isolation of one or more nucleic acid template molecules and polymerization of a nascent complementary strand of nucleic acid, using a DNA or RNA polymerase or similar synthetic reagent. As the nascent strand is extended one nucleotide at a time, the disappearance of nucleotide precursors from solution is monitored by Raman spectroscopy or FRET. The nucleic acid sequence of the nascent strand, and the complementary sequence of the template strand, may be determined by tracking the order of incorporation of nucleotide precursors during the polymerization reaction. Certain embodiments concern apparatus comprising a reaction chamber and detection unit, of use in practicing the claimed methods. The methods, compositions and apparatus are of use in sequencing very long nucleic acid templates in a single sequencing reaction.
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公开(公告)号：WO2006023458A9
公开(公告)日：2006-04-06
申请号：PCT/US2005029019
申请日：2005-08-13
Applicant: INTEL CORP , SUNDARARAJAN NARAYAN , SUN LEI , SU XING , YAMAKAWA MINEO , JINGWU ZHANG , CHAN SELENA , BERLIN ANDREW , KOO TAE-WOONG , ROTH MARK , GAFEN PHIL
Inventor： SUNDARARAJAN NARAYAN , SUN LEI , SU XING , YAMAKAWA MINEO , JINGWU ZHANG , CHAN SELENA , BERLIN ANDREW , KOO TAE-WOONG , ROTH MARK , GAFEN PHIL
CPC classification number: G01N33/6851 , G01N21/658 , G01N33/54373 , G01N33/68 , G01N33/6842 , G01N33/6848 , Y02A90/26
Abstract: Embodiments of the present invention provide devices and methods for detecting, identifying, distinguishing, and quantifying modification states of proteins and peptides using Surface Enhanced Raman (SERS) and Raman spectroscopy. Applications of embodiments of the present invention include, for example, proteome wide modification profiling and analyses with applications in disease diognosis, prognosis and drug efficacy studies, emzymatic activity profiling and assays.
Abstract translation: 本发明的实施方案提供了使用表面增强拉曼（SERS）和拉曼光谱法检测，鉴定，区分和定量蛋白质和肽的修饰状态的装置和方法。 本发明的实施方案的应用包括例如蛋白质组广泛的修饰分析和分析，其应用于疾病预后，预后和药物功效研究，酶活性分析和测定。
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公开(公告)号：WO2005095963A3
公开(公告)日：2006-02-23
申请号：PCT/US2005010401
申请日：2005-03-25
Applicant: INTEL CORP , DUBIN VALERY , DAVID KEN , BERLIN ANDREW
Inventor： DUBIN VALERY , DAVID KEN , BERLIN ANDREW
Abstract: An apparatus includes a condensed array addressed device; and a spectroscope optically coupled to the condensed array addressed device. A method includes determining bonding and/or lack-of-bonding of a target molecule to a condensed array addressed device by characterizing a subsequent rate of electrolysis on the condensed array addressed device. A method includes fabricating a condensed array addressed device using damascene patterning.
Abstract translation: 一种装置包括一个聚光阵列寻址装置; 以及光学耦合到聚光阵列寻址装置的分光镜。 一种方法包括通过表征冷凝阵列寻址装置上随后的电解速率来确定目标分子与冷凝阵列寻址装置的结合和/或缺少键合。 一种方法包括使用镶嵌图案来制造聚光阵列寻址装置。
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15.发明申请NUCLEIC ACID SEQUENCING BY RAMAN MONITORING OF UPTAKE OF NUCLEOTIDES DURING MOLECULAR REPLICATION 审中-公开在分子复制期间通过拉曼监测核酸摄取的核酸序列
公开(公告)号：WO2005066369A3
公开(公告)日：2006-02-02
申请号：PCT/US2004043633
申请日：2004-12-28
Applicant: INTEL CORP , BERLIN ANDREW , SU XING , CHAN SELENA , KOO TAE-WOONG , SUN LEI , SUNDARARAJAN NARAYAN
Inventor： BERLIN ANDREW , SU XING , CHAN SELENA , KOO TAE-WOONG , SUN LEI , SUNDARARAJAN NARAYAN
CPC classification number: G01N21/658 , C12Q1/6869 , C12Q2565/632 , C12Q2533/101
Abstract: The methods and apparatus disclosed herein are useful for detecting nucleotides, nucleosides, and bases and for nucleic acid sequence determination. The methods involve detection of a nucleotide, nucleoside, or base using surface enhanced Raman spectroscopy (SERS) or surface enhanced coherent anti-Stokes Raman spectroscopy (SECARS). The detection can be part of a nucleic acid sequencing reaction to detect uptake of a deoxynucleotide triphosphate during a nucleic acid polymerization reaction, such as a nucleic acid sequencing reaction. The nucleic acid sequence of a synthesized nascent strand, and the complementary sequence of the template strand, can be determined by tracking the order of incorporation of nucleotides during the polymerization reaction. Methods for enhancing the SERS signal of a nucleotide or nucleoside by cleaving the base from a sugar moiety are provided. Furthermore, methods for detecting single base repeats are provided.
Abstract translation: 本文公开的方法和装置可用于检测核苷酸，核苷和碱基并用于核酸序列测定。 该方法涉及使用表面增强拉曼光谱（SERS）或表面增强相干抗斯托克斯拉曼光谱（SECARS）检测核苷酸，核苷或碱基。 检测可以是在核酸聚合反应（例如核酸测序反应）期间检测脱氧核苷酸三磷酸的摄取的核酸测序反应的一部分。 合成的新生链的核酸序列和模板链的互补序列可以通过跟踪聚合反应期间核苷酸掺入的顺序来确定。 提供了通过从糖部分切割碱来增强核苷酸或核苷的SERS信号的方法。 此外，提供了用于检测单碱基重复的方法。
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Patent Agency Ranking16.发明申请METHODS FOR USING RAMAN SPECTROSCOPY TO OBTAIN A PROTEIN PROFILE OF A BIOLOGICAL SAMPLE 审中-公开使用拉曼光谱法获得生物样品的蛋白质谱的方法
公开(公告)号：WO2005065541A2
公开(公告)日：2005-07-21
申请号：PCT/US2004043769
申请日：2004-12-29
Applicant: INTEL CORP , BERLIN ANDREW , SU XING , CHAN SELENA , KOO TAE-WOONG , SUN LEI , SUNDARARAJAN NARAYAN , YAMAKAWA MINEO
Inventor： BERLIN ANDREW , SU XING , CHAN SELENA , KOO TAE-WOONG , SUN LEI , SUNDARARAJAN NARAYAN , YAMAKAWA MINEO
CPC classification number: G01N21/658 , G01N33/6803 , G01N2021/653 , G01N2021/655 , G01N2021/656
Abstract: The invention provides methods for analyzing the protein content of a biological sample, for example to obtain a protein profile of a sample provided by a particular individual. The proteins and protein fragments in the sample are separated on the basis of chemical and/or physical properties and maintained in a separated state at discrete locations on a solid substrate or within a stream of flowing liquid. Raman spectra are then detected as produced by the separated proteins or fragments at the discrete locations such that a spectrum from a discrete location provides information about the structure or identity of one or more particular proteins or fragments at the discrete location. The proteins or fragments at discrete locations can be coated with a metal, such as gold or silver, and/or the separated proteins can be contacted with a chemical enhancer to provide SERS spectra. Method and kits for practicing the invention are also provided.
Abstract translation: 本发明提供了用于分析生物样品的蛋白质含量的方法，例如获得由特定个体提供的样品的蛋白质谱。 样品中的蛋白质和蛋白质片段基于化学和/或物理性质分离，并在固体基质上或流动液体流中的离散位置处保持分离状态。 然后检测拉曼光谱，由离散位置处的分离的蛋白质或片段产生，使得离散位置的光谱提供关于在离散位置处的一种或多种特定蛋白质或片段的结构或身份的信息。 离散位置处的蛋白质或片段可以用金属（例如金或银）涂覆，和/或分离的蛋白质可与化学增强剂接触以提供SERS光谱。 还提供了用于实施本发明的方法和试剂盒。
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公开(公告)号：WO2004031749A3
公开(公告)日：2004-06-24
申请号：PCT/US0330997
申请日：2003-09-30
Applicant: INTEL CORP
Inventor： BERLIN ANDREW , GERTH CHRISTOPHER , KOO TAE-WOONG
CPC classification number: G01N21/65 , G01N21/658 , G01N2021/052 , G01N2021/653 , G01N2021/655 , Y10T436/143333
Abstract: Spectroscopic analysis systems and methods for analyzing samples are disclosed. An analysis system may contain an electromagnetic radiation source to provide radiation, a spectroscopic analysis chamber to perform a coherent Raman spectroscopy (e.g., stimulated Raman or coherent anti-Stokes Raman spectroscopy), and a radiation detector to detect radiation based on the spectroscopy. The chamber may have a resonant cavity to contain a sample for analysis, at least one window to the cavity to transmit the first radiation into the cavity and to transmit a second radiation out, a plurality of reflectors affixed to a housing of the cavity to reflect radiation of a predetermined frequency, the plurality of reflectors separated by a distance that is sufficient to resonate the radiation. The spectroscopic analysis system may be coupled with a nucleic acid sequencing system to receive a single nucleic acid derivative in solution and identify the derivative to sequence the nucleic acid.
Abstract translation: 公开了用于分析样品的光谱分析系统和方法。 分析系统可以包含用于提供辐射的电磁辐射源，用于执行相干拉曼光谱（例如，受激拉曼或相干反斯托克斯拉曼光谱）的光谱分析室，以及基于光谱检测辐射的辐射检测器。 腔室可以具有一个谐振腔，以容纳用于分析的样本，至少一个窗口，用于将腔室中的第一辐射传输到腔体中并传输第二辐射，多个反射器固定到空腔的壳体以反射 预定频率的辐射，多个反射器分开足以使辐射共振的距离。 光谱分析系统可以与核酸测序系统结合以在溶液中接受单个核酸衍生物，并鉴定衍生物以对核酸进行排序。
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公开(公告)号：DE60320867D1
公开(公告)日：2008-06-19
申请号：DE60320867
申请日：2003-10-31
Applicant: INTEL CORP
Inventor： SU XING , BERLIN ANDREW
Abstract: The methods and apparatus, disclosed herein are of use for sequencing and/or identifying proteins, polypeptides and/or peptides. Proteins containing labeled amino acid residues may be synthesized and passed through nanopores. A detector operably coupled to a nanopore may detect labeled amino acid residues as they pass through the nanopore. Distance maps for each type of labeled amino acid residue may be compiled. The distance maps may be used to sequence and/or identify the protein. Apparatus of use for protein sequencing and/or identification is also disclosed herein. In alternative methods, other types of analytes may be analyzed by the same techniques.
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公开(公告)号：DE60225157D1
公开(公告)日：2008-04-03
申请号：DE60225157
申请日：2002-09-05
Applicant: INTEL CORP
Inventor： RAO VALLURI , NEUBAUER GABI , KIRCH STEVEN , YAMAKAWA MINEO , BERLIN ANDREW
IPC: C12Q1/68 , B01L3/00 , C07H21/02 , C07H21/04 , C12M1/00 , C12M1/34 , C12N15/00 , C12N15/09 , C12P19/34 , G01J3/42 , G01J3/427 , G01J3/44 , G01N21/65 , G01N33/53 , G01N33/566
Abstract: The methods, compositions and apparatus disclosed herein are of use for nucleic acid sequence determination. The methods involve isolation of one or more nucleic acid template molecules and polymerization of a nascent complementary strand of nucleic acid, using a DNA or RNA polymerase or similar synthetic reagent. As the nascent strand is extended one nucleotide at a time, the disappearance of nucleotide precursors from solution is monitored by Raman spectroscopy or FRET. The nucleic acid sequence of the nascent strand, and the complementary sequence of the template strand, may be determined by tracking the order of incorporation of nucleotide precursors during the polymerization reaction. Certain embodiments concern apparatus comprising a reaction chamber and detection unit, of use in practicing the claimed methods. The methods, compositions and apparatus are of use in sequencing very long nucleic acid templates in a single sequencing reaction.
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公开(公告)号：DE112005001895T5
公开(公告)日：2007-06-21
申请号：DE112005001895
申请日：2005-07-20
Applicant: INTEL CORP
Inventor： KOO TAE-WOONG , BERLIN ANDREW , SALSMAN KEN , OSTROVSKY BRIAN
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