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1. 发明授权

US07805253B2 Methods and systems for discovering protein modifications and mutations 有权
标题翻译：发现蛋白质修饰和突变的方法和系统
公开(公告)号：US07805253B2
公开(公告)日：2010-09-28
申请号：US11217257
申请日：2005-08-31
申请人： Xunming Chen , Philip J. Savickas , Marvin L. Vestal , Xiangping Zhu
发明人： Xunming Chen , Philip J. Savickas , Marvin L. Vestal , Xiangping Zhu
IPC分类号： G01N33/48 , G01N31/00 , G06G7/48
CPC分类号： G06F19/22
摘要： Accordingly, systems and methods for protein identification are provided. The present teaching provide for a system with one protein identification methodology based on one method and a second protein identification methodology based on a second protein identification methodology to interact and increase confidence in protein identification. Various embodiments employ protein identification methodologies that identify portions of a peptide. Various embodiments provide for a hypothesis generation module that can suggest modifications for the peptide based on differences between experimental and theoretical values. Various embodiments provide for an identifier module that can select one or more hypotheses from the hypothesis module as most probable. In this way, the present teachings can provide for systems and methods to combine protein identification results from multiple protein identification methodologies with the possibility of identifying modifications.
摘要翻译：因此，提供了用于蛋白质鉴定的系统和方法。本教学提供了基于一种方法的一种蛋白质鉴定方法的系统，以及基于第二种蛋白质鉴定方法的第二种蛋白质鉴定方法来交互并增加蛋白质鉴定的置信度。各种实施方案采用鉴定肽部分的蛋白质鉴定方法。各种实施方案提供了假设生成模块，其可基于实验值和理论值之间的差异来建议肽修饰。各种实施例提供了可以从假设模块中选择一个或多个假设为最可能的标识符模块。以这种方式，本教导可以提供将来自多种蛋白质鉴定方法的蛋白质鉴定结果与识别修饰的可能性组合的系统和方法。

2. 发明授权

US06844545B1 MALDI plate with removable insert 失效
标题翻译：具有可移除插入物的MALDI板
公开(公告)号：US06844545B1
公开(公告)日：2005-01-18
申请号：US10683794
申请日：2003-10-10
申请人： Timothy E. Hutchins , Andrew J. Tomlinson , Philip J. Savickas
发明人： Timothy E. Hutchins , Andrew J. Tomlinson , Philip J. Savickas
IPC分类号： B01L9/00 , H01J49/04 , H01J49/16 , G01N1/30
CPC分类号： H01J49/0418 , B01L9/52 , B01L2200/025 , B01L2300/0819 , B01L2300/0822
摘要： A sample plate structure is provided including a retainer plate having a central opening, a sample insert plate which fits into the opening, an optional pressure plate and a handle. The handle applies pressure to the sample insert plate to retain it within the retainer plate. The sample insert plate is provided with a peripheral configuration, which assures that the sample insert plate is properly oriented within the sample plate support structure and is held flat. While the sample insert plate can be a consumable, the remaining portion of the apparatus can be reused.
摘要翻译：提供了样品板结构，其包括具有中心开口的保持板，装配到开口中的样品插入板，可选的压力板和手柄。手柄向样品插入板施加压力以将其保持在保持板内。样品插入板设置有周边结构，其确保样品插入板适当地定位在样品板支撑结构内并保持平坦。当样品插入板可以是消耗品时，装置的剩余部分可以重复使用。

3. 发明授权

US07634364B2 Methods and systems for mass defect filtering of mass spectrometry data 有权
标题翻译：质谱数据质谱缺陷过滤方法与系统
公开(公告)号：US07634364B2
公开(公告)日：2009-12-15
申请号：US11474128
申请日：2006-06-23
申请人： Xunming Chen , Philip J. Savickas , Marvin L. Vestal
发明人： Xunming Chen , Philip J. Savickas , Marvin L. Vestal
IPC分类号： G01N31/00 , G06F17/18
CPC分类号： H01J49/0036
摘要： The present teachings relate to a method of filtering mass spectrometer data using a variable filter window. The width of the window can depend on the mass itself and the mass defects for a family of compounds. The teachings can be used with a plurality of compounds including but not limited to peptides and can be utilized on a brood range of mass spectrometers.
摘要翻译：本教导涉及使用可变过滤器窗口过滤质谱仪数据的方法。窗口的宽度可以取决于质量本身和一系列化合物的质量缺陷。该教导可以与多种化合物一起使用，包括但不限于肽，并且可以在质谱仪的亲本范围上使用。

4. 发明授权

US07109480B2 Ion source and methods for MALDI mass spectrometry 有权
标题翻译：离子源和MALDI质谱法的方法
公开(公告)号：US07109480B2
公开(公告)日：2006-09-19
申请号：US11065341
申请日：2005-02-23
申请人： Marvin L. Vestal , Kevin M. Hayden , Philip J. Savickas
发明人： Marvin L. Vestal , Kevin M. Hayden , Philip J. Savickas
IPC分类号： H01J49/10 , H01J49/00 , B01D59/44
CPC分类号： H01J49/0418 , H01J49/061 , H01J49/164
摘要： Provided are MALDI ion sources, methods of forming ions and mass analyzer systems. In various embodiments, provided are MALDI ion sources configured to irradiate a sample on a sample surface with a pulse of laser energy at angle within 10 degrees or less of the surface normal, and a first ion optics system configured to extract sample ions in a direction within 5 degrees or less of the surface normal. In various embodiments, MALDI ion sources having substantially coaxial sample irradiation and ion extraction are provided. In various embodiments, methods are provided, which produce sample ions by MALDI and extract sample ions using an accelerating electrical field to form an ion beam, such that, the angle of the trajectory at the exit from the accelerating electrical field of sample ions substantially at the center of the ion beam is substantially independent of sample ion mass.
摘要翻译：提供的是MALDI离子源，形成离子的方法和质量分析仪系统。在各种实施例中，提供了配置成用样品表面上的样品以表面法线的10度或更小的角度的激光能量的脉冲照射的MALDI离子源，以及第一离子光学系统，其被配置为沿着方向在5度以内的表面正常。在各种实施例中，提供具有基本上同轴的样品照射和离子提取的MALDI离子源。在各种实施例中，提供了通过MALDI产生样品离子并使用加速电场提取样品离子以形成离子束的方法，使得在离开加速电场的出口处的轨迹的角度基本上在离子束的中心基本上与样品离子质量无关。

5. 发明授权

US06825478B1 MALDI plate with removable magnetic insert 失效
标题翻译： MALDI板带可移动磁性插件
公开(公告)号：US06825478B1
公开(公告)日：2004-11-30
申请号：US10683024
申请日：2003-10-10
申请人： Robert D. McCarthy , Kevin M. Hayden , Timothy E. Hutchins , Philip J. Savickas , Peter C. Cranshaw
发明人： Robert D. McCarthy , Kevin M. Hayden , Timothy E. Hutchins , Philip J. Savickas , Peter C. Cranshaw
IPC分类号： B01D5944
CPC分类号： B01L9/523 , B01L2200/04 , B01L2300/0829 , H01J49/0418
摘要： A sample plate structure is provided including a retainer plate having a central recess with a trough along its periphery, a sample insert plate which fits into and rests on contact surface of the recess, and a magnet that is held below the contact surface. A portion of the bottom surface of the insert is formed of a magnetic material. The magnet provides sufficient force to retain the insert plate in the retainer plate during MALDI MS analysis. The sample insert plate is provided with a peripheral configuration, which assures that the sample insert plate is properly oriented within the sample plate support structure and is held flat. A hole for a protrusion allows easy insert installation and alignment against the orientation feature in the recess as well as easy removal of the insert simply by pushing up from underneath the retainer plate. While the insert sample plate can be a consumable, the remaining portion of the apparatus can be reused.
摘要翻译：提供了样品板结构，其包括保持板，该保持板具有沿着其周边具有槽的中心凹部，嵌入并搁置在凹部的接触表面上的样品插入板以及保持在接触表面下方的磁体。插入件底面的一部分由磁性材料形成。在MALDI MS分析期间，磁体提供足够的力以将插入板保持在保持板中。样品插入板设置有周边结构，其确保样品插入板适当地定位在样品板支撑结构内并保持平坦。用于突起的孔允许容易的插入件安装和对准凹部中的取向特征，并且简单地通过从保持板的下方向上推动来容易地移除插入件。当插入样品板可以是消耗品时，装置的剩余部分可以重复使用。

6. 发明授权

US06953928B2 Ion source and methods for MALDI mass spectrometry 有权
公开(公告)号：US06953928B2
公开(公告)日：2005-10-11
申请号：US10700300
申请日：2003-10-31
申请人： Marvin L. Vestal , Kevin M. Hayden , Philip J. Savickas
发明人： Marvin L. Vestal , Kevin M. Hayden , Philip J. Savickas
IPC分类号： H01J27/24 , H01J49/16 , H01J49/40 , B01D59/44 , H01J49/00
CPC分类号： H01J49/0418 , H01J49/061 , H01J49/164
摘要： Provided are MALDI ion sources, methods of forming ions and mass analyzer systems. In various embodiments, provided are MALDI ion sources configured to irradiate a sample on a sample surface with a pulse of laser energy at angle within 10 degrees or less of the surface normal, and a first ion optics system configured to extract sample ions in a direction within 5 degrees or less of the surface normal. In various embodiments, MALDI ion sources having substantially coaxial sample irradiation and ion extraction are provided. In various embodiments, methods are provided, which produce sample ions by MALDI and extract sample ions using an accelerating electrical field to form an ion beam, such that, the angle of the trajectory at the exit from the accelerating electrical field of sample ions substantially at the center of the ion beam is substantially independent of sample ion mass.

7. 发明授权

US06790669B1 Method for chemical analysis of biological material 失效
标题翻译：生物材料化学分析方法
公开(公告)号：US06790669B1
公开(公告)日：2004-09-14
申请号：US10018629
申请日：2001-12-14
申请人： Curtis D. Pfeiffer , Nile N. Frawley , Thomas L. Peters , Philip J. Savickas , David R. Albers , Steven J. Gluck , Lawrence W. Nicholson , Jose B. Esquivel H.
发明人： Curtis D. Pfeiffer , Nile N. Frawley , Thomas L. Peters , Philip J. Savickas , David R. Albers , Steven J. Gluck , Lawrence W. Nicholson , Jose B. Esquivel H.
IPC分类号： G01N3014
CPC分类号： G01N30/88 , G01N30/78 , G01N2030/625 , G01N2030/8813 , Y10T436/143333 , Y10T436/25 , Y10T436/255
摘要： A chemical analysis method for determining chemically related differences between subject biological material such as genetically modified plant material and control biological material such as genetically unmodified plant material, which method includes at least the following six steps. The first step is to contact the subject biological material with a fluid extractant, such as a mixture of water, isopropanol and potassium hydroxide, to produce a fluid extract of the subject biological material. The second step is to contact the control biological material with the fluid extractant to produce a fluid extract of the control biological material. The third step is to chromatograph the fluid extract of the subject biological material, for example, gas or fluid chromatography, to produce a chromatogram of the fluid extract of the subject biological material. The fourth step is to chromatograph the fluid extract of the control biological material to produce a chromatogram of the fluid extract of the control biological material. The fifth step is to determine the differences between the chromatograms, for example, by using the method of U.S. Pat. No. 5,592,402, to identify at least one outlier peak. The sixth step is to determine the chemical identity of the outlier peak, for example, using gas chromatography/mass spectroscopy analysis of the outlier peak.
摘要翻译：一种化学分析方法，用于确定受试生物材料如转基因植物材料和对照生物材料如基因未修饰植物材料之间的化学相关差异，该方法至少包括以下六个步骤。第一步是用流体萃取剂如水，异丙醇和氢氧化钾的混合物接触主题生物材料，以产生受试者生物材料的流体提取物。第二步是将控制生物材料与流体萃取剂接触以产生对照生物材料的流体萃取物。第三步是对目标生物材料的流体提取物进行色谱分离，例如气相色谱或流体色谱法，以产生该物质生物材料的液体提取物的色谱图。第四步是对对照生物材料的流体提取物进行色谱分析以产生对照生物材料的液体提取物的色谱图。第五步是确定色谱图之间的差异，例如，使用美国专利No. 确定至少一个异常值峰值的第5,592,402号。第六步是确定离子峰的化学特性，例如使用离子峰的气相色谱/质谱分析。

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