SOFTWARE DISTRIBUTED BY THE MACCOSS LAB 2009-2010

MACCOSS 实验室 2009-2010 年分发的软件

• 批准号: 8171207
• 负责人: Michael MacCoss
• 金额: $ 1万
• 依托单位: UNIVERSITY OF WASHINGTON
• 依托单位国家: 美国
• 财政年份: 2010
• 资助国家: 美国
• 起止时间: 2010-09-01 至 2011-08-31
• 项目状态: 已结题
• 来源: https://reporter.nih.gov/project-details/8171207
• 关键词: Amino Acids; Astacoidea; Biological; Charge; Client; Computer Retrieval of Information on Scientific Projects Database; Computer software; Computer-Assisted Image Analysis; Data; Data Quality; Dimensions; Funding; Grant; Hybrids; Institution; Isotopes; Label; Mass Spectrum Analysis; Methods; Molecular; Monitor; Peptides; Proteins; Proteomics; Reaction; Relative (related person); Reporting; Research; Research Personnel; Resolution; Resources; Running; Sampling; Software Tools; Source; Stable Isotope Labeling; Testing; Time; United States National Institutes of Health; acronyms; crosslink; data acquisition; instrument; mass spectrometer; programs

This subproject is one of many research subprojects utilizing the resources provided by a Center grant funded by NIH/NCRR. The subproject and investigator (PI) may have received primary funding from another NIH source, and thus could be represented in other CRISP entries. The institution listed is for the Center, which is not necessarily the institution for the investigator. The MacCoss lab distributed the following software in 2009-2010: MakeMS2: A windows program for extracting mass spectrometry data from Thermo Fisher RAW instrument files. Hardklor /Kronik: A pair of programs for the analysis of high resolution mass spectrometry data. Hardklor will return monoisotopic m/z and charge states for single or overlapping peptide/protein isotope distributions. CRAWDAD: A software suite for label-free relative quantitation of high- and low-resolution LC-MS data. Replicate runs are aligned in the retention time dimension prior to feature detection using dynamic time warping. Features of differential intensity are detected using statistical tests, and annotated using MS/MS peptide identifications. MScout: A software tool for assessing LC-MS data quality. P3 Predictor: A simple windows program to aide in establishing SRM transitions for targeted proteomics. IDCalc: A Microsoft Windows program that implements the method reported by Kubinyi, Analytica Chimica Acta, 247 (1991) 107-119 for the prediction of isotope distributions. Skyline: A Windows client application for building Selected Reaction Monitoring methods and analyzing the resulting mass spectrometry data. PAnDA: PAnDA is an acronym for Post Analysis Data Acquisition. PAnDA uses the Hardklor feature finder to determine the molecular species in an LC-MS analysis and then uses this information to automatically construct new methods to acquire features missed in prior analyses. Topograph: A Microsoft Windows application for the analysis of mass spectrometry data from biological samples that have been labeled with stable isotope labeled amino acid(s) BullsEye: A program for correcting the monoisotopic m/z for MS/MS spectra from hybrid LTQ-FT and LTQ-Orbitrap mass spectrometers. PepLynx: A program for the interpretation of high resolution MS/MS spectra of cross-linked peptides. The MacCoss lab distributed the following software in 2009-2010: MakeMS2: A windows program for extracting mass spectrometry data from Thermo Fisher RAW instrument files. Hardklor /Kronik: A pair of programs for the analysis of high resolution mass spectrometry data. Hardklor will return monoisotopic m/z and charge states for single or overlapping peptide/protein isotope distributions. CRAWDAD: A software suite for label-free relative quantitation of high- and low-resolution LC-MS data. Replicate runs are aligned in the retention time dimension prior to feature detection using dynamic time warping. Features of differential intensity are detected using statistical tests, and annotated using MS/MS peptide identifications. MScout: A software tool for assessing LC-MS data quality. P3 Predictor: A simple windows program to aide in establishing SRM transitions for targeted proteomics. IDCalc: A Microsoft Windows program that implements the method reported by Kubinyi, Analytica Chimica Acta, 247 (1991) 107-119 for the prediction of isotope distributions. Skyline: A Windows client application for building Selected Reaction Monitoring methods and analyzing the resulting mass spectrometry data. PAnDA: PAnDA is an acronym for Post Analysis Data Acquisition. PAnDA uses the Hardklor feature finder to determine the molecular species in an LC-MS analysis and then uses this information to automatically construct new methods to acquire features missed in prior analyses. Topograph: A Microsoft Windows application for the analysis of mass spectrometry data from biological samples that have been labeled with stable isotope labeled amino acid(s) BullsEye: A program for correcting the monoisotopic m/z for MS/MS spectra from hybrid LTQ-FT and LTQ-Orbitrap mass spectrometers. PepLynx: A program for the interpretation of high resolution MS/MS spectra of cross-linked peptides.

这个子项目是许多研究子项目中的一个 由NIH/NCRR资助的中心赠款提供的资源。子项目和 研究者（PI）可能从另一个NIH来源获得了主要资金， 因此可以在其他CRISP条目中表示。所列机构为 研究中心，而研究中心不一定是研究者所在的机构。 MacCoss实验室在2009-2010年分发了以下软件： MakeMS 2：一个用于从Thermo Fisher RAW仪器文件中提取质谱数据的Windows程序。 Hardklor /Kronik：一对用于分析高分辨率质谱数据的程序。Hardklor将返回单一或重叠肽/蛋白质同位素分布的单一同位素m/z和电荷状态。 CRAWDAD：一个软件套件，用于高分辨率和低分辨率LC-MS数据的无标记相对定量。在使用动态时间扭曲进行特征检测之前，重复运行在保留时间维度上对齐。使用统计检验检测差异强度的特征，并使用MS/MS肽鉴定进行注释。 MScout：用于评估LC-MS数据质量的软件工具。 P3 Predictor：一个简单的Windows程序，用于帮助建立靶向蛋白质组学的SRM转换。 IDCalc：一种Microsoft Windows程序，其实现了Kubinyi，Analytica Chimica Acta，247（1991）107-119报道的用于预测同位素分布的方法。 Skyline：一个Windows客户端应用程序，用于构建选定反应监测方法并分析生成的质谱数据。PAnDA：PAnDA是Post Analysis Data Acquisition的缩写。PAnDA使用Hardklor特征查找器在LC-MS分析中确定分子种类，然后使用此信息自动构建新方法以获取先前分析中遗漏的特征。 地形图：一个Microsoft Windows应用程序，用于分析已用稳定同位素标记的氨基酸标记的生物样品的质谱数据 BullsEye：用于校正混合LTQ-FT和LTQ-Orbitrap质谱仪MS/MS光谱的单一同位素m/z的程序。 PepLynx：用于解释交联肽的高分辨率MS/MS光谱的程序。 MacCoss实验室在2009-2010年分发了以下软件： MakeMS 2：一个用于从Thermo Fisher RAW仪器文件中提取质谱数据的Windows程序。 Hardklor /Kronik：一对用于分析高分辨率质谱数据的程序。Hardklor将返回单一或重叠肽/蛋白质同位素分布的单一同位素m/z和电荷状态。 CRAWDAD：一个软件套件，用于高分辨率和低分辨率LC-MS数据的无标记相对定量。在使用动态时间扭曲进行特征检测之前，重复运行在保留时间维度上对齐。使用统计检验检测差异强度的特征，并使用MS/MS肽鉴定进行注释。 MScout：用于评估LC-MS数据质量的软件工具。 P3 Predictor：一个简单的Windows程序，用于帮助建立靶向蛋白质组学的SRM转换。 IDCalc：一种Microsoft Windows程序，其实现了Kubinyi，Analytica Chimica Acta，247（1991）107-119报道的用于预测同位素分布的方法。 Skyline：一个Windows客户端应用程序，用于构建选定反应监测方法并分析生成的质谱数据。PAnDA：PAnDA是Post Analysis Data Acquisition的缩写。PAnDA使用Hardklor特征查找器在LC-MS分析中确定分子种类，然后使用此信息自动构建新方法以获取先前分析中遗漏的特征。 地形图：一个Microsoft Windows应用程序，用于分析已用稳定同位素标记的氨基酸标记的生物样品的质谱数据 BullsEye：用于校正混合LTQ-FT和LTQ-Orbitrap质谱仪MS/MS光谱的单一同位素m/z的程序。 PepLynx：用于解释交联肽的高分辨率MS/MS光谱的程序。