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公开(公告)号：US20090062138A1
公开(公告)日：2009-03-05
申请号：US11897613
申请日：2007-08-31
申请人： Bo U. Curry , Nicholas M. Sampas , Robert A. Ach
发明人： Bo U. Curry , Nicholas M. Sampas , Robert A. Ach
CPC分类号： C12Q1/6837 , C12Q2600/156 , C12Q2527/107 , C12Q2525/161 , C12Q2523/113
摘要： An array-based method for performing SNP analysis is provided. In certain embodiments, the method may comprise: a) contacting a labeled genomic sample with an array comprising a first SNP-detecting oligonucleotide and a second SNP-detecting oligonucleotide that differ from each other by a single nucleotide, under hybridization conditions that provide binding equilibrium; and b) evaluating a SNP of said labeled genomic sample by comparing: i. binding of the labeled genomic sample to the first SNP-detecting oligonucleotide and ii. binding of the labeled genomic sample to said second SNP-detecting oligonucleotide.
摘要翻译： 提供了一种用于执行SNP分析的基于阵列的方法。 在某些实施方案中，所述方法可以包括：a）在提供结合平衡的杂交条件下，使标记的基因组样品与包含第一SNP检测寡核苷酸和第二SNP检测寡核苷酸的阵列接触，所述第一SNP检测寡核苷酸与单个核苷酸彼此不同 ; 和b）通过比较来评估所述标记的基因组样品的SNP： 标记的基因组样品与第一SNP检测寡核苷酸的结合，和ii。 标记的基因组样品与所述第二SNP检测寡核苷酸的结合。
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公开(公告)号：US20110301854A1
公开(公告)日：2011-12-08
申请号：US13073766
申请日：2011-03-28
申请人： Bo U. Curry , Nicholas M. Sampas
发明人： Bo U. Curry , Nicholas M. Sampas
CPC分类号： C12Q1/683 , C12Q1/6827 , G16B20/00 , G16B40/00 , C12Q2537/16 , C12Q2537/165
摘要： A method of estimating the allele-specific copy number of a SNP in a test genome is provided. In certain embodiments, the method involves: a) calculating a plurality of probability distribution functions that fit a plurality of log ratios indicating which alleles of a plurality of single nucleotide polymorphisms (SNPs) are present in diploid regions of a test and reference genome; and b) estimating the allele-specific copy number of a SNP of the test genome using said plurality of probability distribution functions.
摘要翻译： 提供了一种估计测试基因组中SNP等位基因特异性拷贝数的方法。 在某些实施方案中，所述方法包括：a）计算多个拟合多个对数比的概率分布函数，所述多个对数比指示在测试和参考基因组的二倍体区域中存在多个单核苷酸多态性（SNP）的哪些等位基因; 以及b）使用所述多个概率分布函数估计所述测试基因组的SNP的等位基因特异性拷贝数。
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公开(公告)号：US08570518B2
公开(公告)日：2013-10-29
申请号：US11701292
申请日：2007-01-31
IPC分类号： G01N21/00
CPC分类号： G01N21/648 , G01N21/7703 , G01N2021/7709 , G01N2021/7786
摘要： A test system includes an optical medium, a binding agent capable of capturing a target complex, and a light detector. The optical medium provides a light path, and the binding agent is positioned to hold the target complex in an evanescent field created by propagation of light along the light path. The complex interacts with the evanescent field and emits light that the detector positioned to detect. The optical medium and the detector can be included in an optical integrated circuit where detected light passes through the optical medium transverse to the direction of the light path.
摘要翻译： 测试系统包括光学介质，能够捕获目标复合物的粘合剂和光检测器。 光学介质提供光路，并且粘合剂被定位成将目标复合体保持在通过沿着光路的光的传播产生的消逝场中。 复合体与ev逝场相互作用并发射检测器定位以检测的光。 光学介质和检测器可以包括在光学集成电路中，其中检测到的光穿过光学介质横向于光路的方向。
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公开(公告)号：US20080180673A1
公开(公告)日：2008-07-31
申请号：US11701292
申请日：2007-01-31
IPC分类号： G01N21/75
CPC分类号： G01N21/648 , G01N21/7703 , G01N2021/7709 , G01N2021/7786
摘要： A test system includes an optical medium, a binding agent capable of capturing a target complex, and a light detector. The optical medium provides a light path, and the binding agent is positioned to hold the target complex in an evanescent field created by propagation of light along the light path. The complex interacts with the evanescent field and emits light that the detector positioned to detect. The optical medium and the detector can be included in an optical integrated circuit where detected light passes through the optical medium transverse to the direction of the light path.
摘要翻译： 测试系统包括光学介质，能够捕获目标复合物的粘合剂和光检测器。 光学介质提供光路，并且粘合剂被定位成将目标复合体保持在通过沿着光路的光的传播产生的消逝场中。 复合体与ev逝场相互作用并发射检测器定位以检测的光。 光学介质和检测器可以包括在光学集成电路中，其中检测到的光穿过光学介质横向于光路的方向。
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5.发明授权Probe design methods and microarrays for comparative genomic hybridization and location analysis 有权用于比较基因组杂交和位置分析的探针设计方法和微阵列公开(公告)号：US08036835B2
公开(公告)日：2011-10-11
申请号：US12797521
申请日：2010-06-09
申请人： Nicholas M. Sampas , Bo Curry , Peter Tsang , Doron Lipson , Zohar H. Yakhini
发明人： Nicholas M. Sampas , Bo Curry , Peter Tsang , Doron Lipson , Zohar H. Yakhini
IPC分类号： G06F7/00
CPC分类号： C12Q1/6883 , B01J2219/00689 , B01J2219/00695 , B01J2219/00722 , G06F19/20
摘要： Methods and systems for identifying and selecting nucleic acid probes for detecting a target with a nucleic acid probe array or comparative genome hybridization microarray, comprising selecting a plurality of potential target sequences, generating a plurality of candidate probes from the target sequences, filtering the plurality of candidate probes by analyzing candidate probes for selected probe properties in silico. Microarrays comprising probes selected by the methods of the invention are particularly useful for comparative genome hybridization and location analysis.
摘要翻译： 用于鉴定和选择用于用核酸探针阵列或比较基因组杂交微阵列检测靶的核酸探针的方法和系统，包括选择多个潜在靶序列，从靶序列产生多个候选探针，过滤多个 通过分析选择的探针属性的候选探针在硅胶中的候选探针。 包含通过本发明方法选择的探针的微阵列特别可用于比较基因组杂交和位置分析。
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6.发明授权Techniques for measuring difference of an optical property at two wavelengths by modulating two sources to have opposite-phase components at a common frequency 失效通过调制两个源以在相同频率处具有相位分量来测量两个波长的光学性质的差异的技术
公开(公告)号：US5774213A
公开(公告)日：1998-06-30
申请号：US518427
申请日：1995-08-23
IPC分类号： G01N21/31
CPC分类号： G01N21/3151
摘要： A technique for making precise spectrophotometric measurements illuminates a sample with two or more modulated light sources at two or more, typically closely spaced, wavelengths. Light from the sources is combined, homogenized, and directed to the sample, and the light from the sample is collected and detected by a photodetector. The optical output powers of two sources are modulated with the same periodicity and with a reversed amplitude. Variations in the concentrations of species in the sample affect the modulation amplitude representing the sum of the optical powers from two sources in such a way as to produce an output signal. That output signal, based on an electrical component varying with a periodicity at the fundamental frequency, provides a measure of the difference in the transmissions (or other optical properties) of the sample at the two wavelengths. Feedback methods, such as null-point detection, provide stable, sensitive measurements. Wavelength-division multiplexing--required for simultaneous measurements at many wavelengths--is achieved by modulating different pairs of sources at different frequencies.
摘要翻译： 用于进行精确的分光光度测量的技术用两个或更多个通常紧密间隔的波长的两个或多个调制光源照射样品。 来自源的光被组合，均质化并且被引导到样品，并且来自样品的光被光电检测器收集和检测。 两个源的光输出功率以相同的周期性和相反的幅度进行调制。 样品中物种浓度的变化影响表示来自两个光源的光功率之和的调制幅度，以产生输出信号。 该输出信号基于以基频周期性变化的电子分量提供在两个波长处的样本的传输（或其他光学性质）的差异的度量。 反馈方法，如零点检测，提供稳定，敏感的测量。 通过在不同频率调制不同的源对来实现在许多波长下同时测量所需的波分复用。
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公开(公告)号：US09255245B2
公开(公告)日：2016-02-09
申请号：US13541478
申请日：2012-07-03
摘要： A sample probe includes a tip including a distal end for penetrating a cellular membrane, an opening located at or proximal to the distal end, and tip microchannels extending through the tip and communicating with the opening; and a body adjoining the tip and including body microchannels, wherein at least one of the body microchannels communicates with at least one of the tip microchannels. A method for sampling intracellular material includes inserting a probe tip through a cellular membrane; aspirating intracellular material from the cell, through an opening of the tip, and into a first microchannel of the tip; flowing isolator fluid from a second microchannel of the tip into the first microchannel to form a plug of intracellular material; and aspirating the plug and the isolator fluid through the first microchannel.
摘要翻译： 样品探针包括尖端，其包括用于穿透细胞膜的远端，位于远端或近端的开口，以及延伸穿过尖端并与开口连通的尖端微通道; 以及与所述尖端相邻并且包括身体微通道的主体，其中所述主体微通道中的至少一个与所述尖端微通道中的至少一个连通。 用于取样细胞内物质的方法包括将探针尖端穿过细胞膜; 从细胞吸出细胞内物质，通过尖端的开口并进入尖端的第一微通道; 流动的隔离器流体从尖端的第二微通道进入第一微通道以形成细胞内物质的塞子; 并且通过第一微通道吸出塞子和隔离器流体。
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8.发明授权Arrays comprising background features that provide for a measure of a non-specific binding and methods for using the same 失效包含提供非特异性结合度量的背景特征的数组和使用该特征的方法公开(公告)号：US07122303B2
公开(公告)日：2006-10-17
申请号：US09398399
申请日：1999-09-17
申请人： Glenda C. Delenstarr , Steven M. Lefkowitz , Kevin J. Luebke , Leslie B. Overman , Nicholas M. Sampas , Jeffery R. Sampson , Paul K. Wolber
发明人： Glenda C. Delenstarr , Steven M. Lefkowitz , Kevin J. Luebke , Leslie B. Overman , Nicholas M. Sampas , Jeffery R. Sampson , Paul K. Wolber
CPC分类号： C12Q1/6837 , Y10T436/143333 , C12Q2545/107
摘要： Methods for substantially improved detection and analysis in nucleic acid hybridization assays are described. The methods provide the reliable estimation of background signal which derives primarily from nonspecific hybridization. The invention is useful in chemical, biological, medical and diagnostic techniques, as well as for drug discovery.
摘要翻译： 描述了在核酸杂交测定中基本上改进的检测和分析的方法。 该方法提供了主要来自非特异性杂交的背景信号的可靠估计。 本发明可用于化学，生物，医学和诊断技术以及用于药物发现。
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公开(公告)号：US07006927B2
公开(公告)日：2006-02-28
申请号：US10086839
申请日：2002-02-28
申请人： Zohar Yakhini , Cynthia Y. Enderwick , Glenda C. Delenstarr , Paul K. Wolber , Nicholas M. Sampas , Herbert F. Cattell , Scott D. Connell
发明人： Zohar Yakhini , Cynthia Y. Enderwick , Glenda C. Delenstarr , Paul K. Wolber , Nicholas M. Sampas , Herbert F. Cattell , Scott D. Connell
IPC分类号： G06F11/32
CPC分类号： G06T7/73 , G06T2207/30072
摘要： A method and system for extracting data signals from a scanned image resulting from optical, radiometric, or other types of analysis of a molecular array. The positions of corner features are first located. Then, an initial feature coordinate grid is determined from the positions of the corner features. A refined feature coordinate grid is then calculated based on the positions of strong features, and is used to identify the positions of weak features and the positions of the local background regions surrounding all features. Finally, signal intensity values are extracted from the features and their respective local background regions in the scanned image, and background-subtracted signal intensity values, background-subtracted and normalized signal intensity ratios, and variability information and confidence intervals are determined based on the extracted values.
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公开(公告)号：US06750963B2
公开(公告)日：2004-06-15
申请号：US10153128
申请日：2002-05-21
申请人： Nicholas M. Sampas
发明人： Nicholas M. Sampas
IPC分类号： G01N2164
CPC分类号： G01N21/6452 , G01N21/6428
摘要： Apparatus and methods are disclosed for imaging surfaces that comprise a sample. One embodiment of the present invention is an imaging apparatus comprising a holder for a surface, a light source adapted to illuminate the surface, a diffractive element between the holder and the light source and an imaging detector adapted to receive light from the surface. In a method for imaging a surface comprising a plurality of discrete features, light is selectively diffracted on to one or more predetermined features of the surface at a predetermined point in time. This step is repeated until substantially all of the features on the surface are illuminated. Light is detected from the surface to thereby image the surface.
摘要翻译： 公开了用于对包含样品的表面进行成像的装置和方法。 本发明的一个实施例是一种成像设备，其包括用于表面的保持器，适于照亮表面的光源，保持器和光源之间的衍射元件以及适于接收来自表面的光的成像检测器。 在用于成像包括多个离散特征的表面的方法中，光在预定的时间点被选择性地衍射到表面的一个或多个预定特征。 重复该步骤直到基本上表面上的所有特征被照亮。 从表面检测光，从而对表面进行成像。
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