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31. 发明授权

US07599060B2 Optical scanning configurations, systems, and methods involving at least one actuator for scanning a scan head 有权
标题翻译：涉及用于扫描扫描头的至少一个致动器的光学扫描配置，系统和方法
公开(公告)号：US07599060B2
公开(公告)日：2009-10-06
申请号：US12222820
申请日：2008-08-18
申请人： Jon A. Hoshizaki , Howard G. King , Johannes P. Sluis , Steven J. Boege , Mark F. Oldham
发明人： Jon A. Hoshizaki , Howard G. King , Johannes P. Sluis , Steven J. Boege , Mark F. Oldham
IPC分类号： G01N21/64
CPC分类号： G01N21/645 , F21V29/54 , F21V29/677 , F21V29/763 , G01N21/6452 , G01N2021/6439 , G01N2201/062 , G01N2201/1211 , G05D23/1919 , G05D23/20
摘要： An optical system includes a sample substrate having a surface, the surface defining a 2-dimensional sample plane. The system includes an excitation source configured to provide excitation light to the sample substrate. The system further includes an optical detector configured to receive emission light from the sample substrate and generate detection data. The system also includes a scan head configured at least (i) to direct the excitation light towards the sample substrate, (ii) to receive emission light from the sample substrate and direct the emission light towards the optical detector, and (iii) for scanning relative to the sample substrate. The system includes at least one actuator configured to scan the scan head relative to the sample substrate, the at least one actuator being configured to provide at least one of (1) a relative linear motion and a relative angular motion about a rotational axis generally perpendicular to the sample plane and (2) two relative angular motions about two respectively different rotational axes generally perpendicular to the sample plane.
摘要翻译：光学系统包括具有表面的样品基底，该表面限定了二维样品平面。该系统包括被配置为向样品基底提供激发光的激发源。该系统还包括光学检测器，其被配置为接收来自样品基板的发射光并产生检测数据。该系统还包括扫描头，该扫描头至少配置成（i）将激发光引向样品衬底，（ii）接收来自样品衬底的发射光并将发射光引向光学检测器，以及（iii）用于扫描相对于样品基底。所述系统包括至少一个致动器，其构造成相对于样品基板扫描扫描头，所述至少一个致动器被配置为提供以下中的至少一个：（1）相对线性运动和围绕大体垂直的旋转轴线的相对角运动（2）大致垂直于样品平面的两个不同旋转轴的两个相对角运动。

32. 发明申请

US20090141272A1 Optical instrument comprising multi-notch beam splitter 有权
标题翻译：光学仪器包括多槽分光镜
公开(公告)号：US20090141272A1
公开(公告)日：2009-06-04
申请号：US12321830
申请日：2009-01-26
申请人： Mark F. Oldham , Eugene F. Young
发明人： Mark F. Oldham , Eugene F. Young
IPC分类号： G01J3/28
CPC分类号： G01N21/6486 , B01L3/5085 , B01L7/52 , C12Q2545/101 , G01N21/274 , G01N21/6428 , G01N21/645 , G01N21/6452 , G01N2021/6419 , G01N2021/6421 , G01N2021/6439 , G01N2021/6441 , G01N2021/6463 , G01N2021/6482 , G01N2201/0245 , G01N2201/0628 , G01N2201/0635 , Y10S435/808 , Y10S435/809
摘要： An instrument is provided that can monitor nucleic acid sequence amplification reactions, for example, PCR amplification of DNA and DNA fragments. The instrument includes a multi-notch filter disposed along one or both of an excitation beam path and an emission beam path. Methods are also provided for monitoring nucleic acid sequence amplifications using an instrument that includes a multi-notch filter disposed along a beam path.
摘要翻译：提供了可以监测核酸序列扩增反应的仪器，例如DNA和DNA片段的PCR扩增。仪器包括沿激发光束路径和发射光束路径中的一个或两个设置的多陷波滤波器。还提供了使用包括沿着光束路径设置的多陷波滤波器的仪器来监测核酸序列扩增的方法。

33. 发明申请

US20080290283A1 Signal noise reduction for imaging in biological analysis 有权
标题翻译：生物分析中成像信号降噪
公开(公告)号：US20080290283A1
公开(公告)日：2008-11-27
申请号：US12220763
申请日：2008-07-28
申请人： Austin B. Tomaney , Mark F. Oldham
发明人： Austin B. Tomaney , Mark F. Oldham
IPC分类号： H01L27/148
CPC分类号： G01N21/6486 , G01N21/6428 , G01N2201/06113 , G01N2201/062 , G01N2201/08 , G01N2201/121 , H04N5/225 , H04N5/357 , H04N5/361 , H04N5/367
摘要： A system and method for characterizing contributions to signal noise associated with charge-coupled devices adapted for use in biological analysis. Dark current contribution, readout offset contribution, photo response non-uniformity, and spurious charge contribution can be determined by the methods of the present teachings and used for signal correction by systems of the present teachings.
摘要翻译：用于表征与适用于生物分析的电荷耦合器件相关的信号噪声的贡献的系统和方法。暗电流贡献，读出偏移贡献，光响应不均匀性和杂散电荷贡献可以由本教导的方法确定并用于本教导的系统的信号校正。

34. 发明授权

US07435602B2 Reducing effects of spectral nonuniformity 有权
标题翻译：降低光谱不均匀的影响
公开(公告)号：US07435602B2
公开(公告)日：2008-10-14
申请号：US10757903
申请日：2004-01-14
申请人： Stephen J. Gunstream , Mark F. Oldham , Michael R. Gambini , John C. Voyta
发明人： Stephen J. Gunstream , Mark F. Oldham , Michael R. Gambini , John C. Voyta
IPC分类号： G01N21/64 , G01N35/00
CPC分类号： G01N21/31 , G01N21/253 , G01N21/276 , Y10T436/10 , Y10T436/11 , Y10T436/113332 , Y10T436/143333
摘要： Method and system providing calibration of light detected from biological samples with a correction factor including components for each of a plurality of spectrally distinguishable species and/or for each well and/or for each filter.
摘要翻译：方法和系统提供从生物样品检测到的光的校准，其校正因子包括多个光谱可区分物种和/或每个孔和/或每个过滤器中的每一个的分量。

35. 发明授权

US07407798B2 Lens assembly for biological testing 有权
标题翻译：用于生物测试的镜头组件
公开(公告)号：US07407798B2
公开(公告)日：2008-08-05
申请号：US11096341
申请日：2005-03-31
申请人： Mark F. Oldham , Richard T. Reel , Steven J. Boege
发明人： Mark F. Oldham , Richard T. Reel , Steven J. Boege
IPC分类号： G01N21/00 , C12M1/34
CPC分类号： G01N21/6452 , B01L7/52 , B01L2300/046 , B01L2300/0654 , B01L2300/0829 , G01N21/253 , G02B3/0056 , G02B3/08
摘要： The invention relates to an optical detection system for a thermal cycling device including at least one light source, a light detection device for detecting light received from a plurality of biological samples, and a lens having a plurality of focusing lens segments greater than the plurality of biological samples to direct light into the plurality of biological samples.
摘要翻译：本发明涉及一种用于热循环装置的光学检测系统，其包括至少一个光源，用于检测从多个生物样本接收的光的光检测装置，以及具有大于多个生物样本的多个聚焦透镜段的透镜生物样品将光引导到多个生物样品中。

36. 发明授权

US07323681B1 Image enhancement by sub-pixel imaging 有权
标题翻译：亚像素成像增强图像
公开(公告)号：US07323681B1
公开(公告)日：2008-01-29
申请号：US11617360
申请日：2006-12-28
申请人： Mark F. Oldham , Austin B. Tomaney
发明人： Mark F. Oldham , Austin B. Tomaney
IPC分类号： H01J3/14 , H01J40/14 , H01J5/16
CPC分类号： G01N21/6428 , G01N21/6452 , G01N21/6456 , G01N2021/1772 , G01N2021/6484 , G01N2201/0833 , G06T5/50
摘要： Methods and apparatus for improving the resolution of an electronic imaging device having an array of pixels. Sub-pixel dimension movements between an object and the array of pixels are made, and an image is formed at each position. Resulting shifted images are combined to yield an effective resolution corresponding to an array having smaller pixels. Such methods and apparatus allow optical systems with existing pixel devices to form effective images of smaller feature sizes.
摘要翻译：用于改善具有像素阵列的电子成像装置的分辨率的方法和装置。制作像素与像素阵列之间的子像素尺寸运动，并在每个位置形成图像。所得到的移位图像被组合以产生对应于具有较小像素的阵列的有效分辨率。这样的方法和装置允许具有现有像素装置的光学系统形成较小特征尺寸的有效图像。

37. 发明申请

US20180051332A9 SYSTEMS AND METHODS FOR GENETIC AND BIOLOGICAL ANALYSIS 有权
公开(公告)号：US20180051332A9
公开(公告)日：2018-02-22
申请号：US14119859
申请日：2012-05-29
申请人： Hesaam Esfandyarpour , Kosar Baghbani Parizi , Mark F. Oldham , Eric S. Nordman , Richard T. Reel , Susanne Baumhueter , Cheryl Heiner , Frank Lee
发明人： Hesaam Esfandyarpour , Kosar Baghbani Parizi , Mark F. Oldham , Eric S. Nordman , Richard T. Reel , Susanne Baumhueter , Cheryl Heiner , Frank Lee
IPC分类号： C12Q1/68
CPC分类号： C12Q1/6874 , G01N27/327 , G01N33/54313 , G01N33/5438 , C12Q2527/119 , C12Q2563/116 , C12Q2565/607 , C12Q2549/126
摘要： The invention relate to systems and methods for sequencing polynucleotides, as well as detecting reactions and binding events involving other biological molecules. The systems and methods may employ chamber-free devices and nanosensors to detect or characterize such reactions in high-throughput. Because the system in many embodiments is reusable, the system can be subject to more sophisticated and improved engineering, as compared to single use devices.

38. 发明授权

US09285318B2 Optical instrument including excitation source 有权
标题翻译：光学仪器包括激发源
公开(公告)号：US09285318B2
公开(公告)日：2016-03-15
申请号：US13619679
申请日：2012-09-14
申请人： Steven J. Boege , Mark F. Oldham , Eugene F. Young
发明人： Steven J. Boege , Mark F. Oldham , Eugene F. Young
IPC分类号： G01N21/00 , G01N21/64 , F21K99/00 , G01J3/10 , G01J3/02 , F21V29/54 , F21V29/67 , F21V29/74 , G05D23/19 , G05D23/20 , F21Y101/02
CPC分类号： G01N21/64 , F21K9/00 , F21K9/64 , F21V29/54 , F21V29/677 , F21V29/74 , F21Y2115/10 , G01J3/0286 , G01J3/10 , G01N21/645 , G01N21/6452 , G01N2021/6439 , G01N2201/06113 , G01N2201/062 , G01N2201/0638 , G01N2201/1211 , G05D23/1919 , G05D23/20
摘要： An optical instrument is provided for simultaneously illuminating two or more spaced-apart reaction regions with an excitation beam generated by a light source. A collimating lens can be disposed along a beam path between the light source and the reaction regions to form bundles of collimated excitation beams, wherein each bundle corresponds to a respective reaction region. Methods of analysis using the optical instrument are also provided.
摘要翻译：提供了一种光学仪器，用于同时用由光源产生的激发光束照射两个或更多间隔开的反应区域。准直透镜可以沿着光源和反应区域之间的光束路径设置，以形成准直激励束的束，其中每个束对应于相应的反应区域。还提供了使用光学仪器的分析方法。

39. 发明授权

US09026371B2 Method for cross-instrument comparison of gene expression data 有权
标题翻译：交叉仪器比较基因表达数据的方法
公开(公告)号：US09026371B2
公开(公告)日：2015-05-05
申请号：US12558428
申请日：2009-09-11
申请人： Mark E. Shannon , Mark F. Oldham , David W. Ruff
发明人： Mark E. Shannon , Mark F. Oldham , David W. Ruff
IPC分类号： G01N33/48 , C40B30/04 , G06F19/20 , C12Q1/68
CPC分类号： G06F19/20 , C12Q1/686 , C40B30/04
摘要： A method for determining bias across two domains comprising gene expression data. The method can comprise (a) providing a first domain and a second domain; (b) obtaining information indicative of a bias within the first domain; (c) obtaining information indicative of a bias within the second domain; and (d) using the information indicative of the bias within the first domain and the information indicative of the bias within the second domain to produce an indication of bias across the two domains.
摘要翻译：一种用于确定包含基因表达数据的两个结构域之间的偏差的方法。该方法可以包括（a）提供第一域和第二域; （b）获得指示第一域内偏倚的信息; （c）获得指示第二域内偏倚的信息; 以及（d）使用指示第一域内的偏差的信息和指示第二域内的偏差的信息来产生跨越两个域的偏差的指示。

40. 发明授权

US08834797B2 Scanning system and method for imaging and sequencing 有权
标题翻译：扫描系统和成像和测序方法
公开(公告)号：US08834797B2
公开(公告)日：2014-09-16
申请号：US12384516
申请日：2009-04-06
申请人： Mark F. Oldham , Eric S. Nordman , Hongye Sun , Steven J. Boege
发明人： Mark F. Oldham , Eric S. Nordman , Hongye Sun , Steven J. Boege
IPC分类号： C12Q1/68 , G01N33/52
CPC分类号： G01N21/6486 , G01N21/6428 , G01N21/6452 , G01N21/6456
摘要： A scanning detection system is provided in which emissions from locations in a flow cell are detected. In some embodiments, the system can include an excitation source, a photocleavage source, and modulating optics configured to cause an excitation beam generated by the excitation source to irradiate a first group of the fixed locations and to cause a photocleavage beam generated by the photocleavage source to irradiate a second group of the fixed locations, which is separate and apart from the first group of fixed locations. Methods of detecting sequencing reactions using such a system are also provided.
摘要翻译：提供了一种扫描检测系统，其中检测到流动池中的位置的发射。在一些实施例中，系统可以包括激发源，光切割源和调制光学器件，其被配置为使得由激发源产生的激发光束照射第一组固定位置并引起由光切割源产生的光切割束以照射与第一组固定位置分开并分开的第二组固定位置。还提供了使用这种系统检测测序反应的方法。

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