Vanberbilt Biomarker Developmental Laboratory

范伯比尔特生物标志物发育实验室

• 批准号: 8720716
• 负责人: Daniel C Liebler
• 金额: $ 61.53万
• 依托单位: VANDERBILT UNIVERSITY
• 依托单位国家: 美国
• 财政年份: 2010
• 资助国家: 美国
• 起止时间: 2010-08-20 至 2015-06-30
• 项目状态: 已结题
• 来源: https://reporter.nih.gov/project-details/8720716
• 关键词: Address; Algorithmic Software; Biological; Biological Assay; Biological Markers; Blood; Cancer Center; Characteristics; Clinical; Collection; Colorectal Cancer; Complex; Coupled; Data Set; Detection; Development; Diagnosis; Diagnostic tests; Disease; Early Detection Research Network; Early Diagnosis; Equipment and supply inventories; Experimental Designs; Funding; Genomics; Goals; Informatics; Institutes; Laboratories; Learning; Link; Liquid Chromatography; Malignant Neoplasms; Malignant neoplasm of lung; Mass Spectrum Analysis; Methods; Mutation; Normal tissue morphology; Pathway Analysis; Peptides; Performance; Phase; Phenotype; Plasma; Post-Translational Protein Processing; Process; Proteins; Proteome; Proteomics; Research Infrastructure; Resected; Resources; Screening for cancer; Shotguns; Signal Transduction; Source; Specimen; Technology; Technology Assessment; Thoracic Oncology; Tissues; Tumor Tissue; Validation; Variant; Work; base; colorectal cancer screening; instrumentation; multiple reaction monitoring; mutant; novel; oncology program; programs; tandem mass spectrometry; tool; tumor

DESCRIPTION (provided by applicant): This application proposes a Vanderbilt Biomarker Developmental Laboratory (Vanderbilt BDL), which will serve as a component of the NCI Early Detection Research Network (EDRN). The Vanderbilt BDL will be established within the Jim Ayers Institute for Precancer Detection and Diagnosis in the Vanderbilt-lngram Cancer Center which provides outstanding resources, instrumentation and staff dedicated to the problem of biomarker development. The Vanderbilt BDL will employ standardized liquid chromatography-tandem mass spectrometry (LC-MS/MS) and liquid chromatography-multiple reaction monitoring mass spectrometry (LC-MRM-MS) analysis platforms for unbiased discovery and targeted quantitation of protein biomarkers. These analysis platforms are coupled to extensive informatics support infrastructure and ongoing biospecimen collections of the Ayers Institute and the Thoracic Oncology Program in the Vanderbilt-lngram Cancer Center. The Vanderbilt BDL will address the goals of the EDRN BDL program through three specific aims, 1) Develop and apply new informatics tools and approaches to identify mutant, variant and modified proteins as candidate cancer biomarkers. This work will emphasize application of new sequence tagging and signal analysis algorithms and software to identify novel protein forms that distinguish cancer phenotypes, 2) Discover and verify protein biomarker candidates for plasma-based detection of colorectal and lung cancers. This work will apply standardized shotgun proteomics analyses for biomarker candidate discovery in tissues and a standardized LC- MRM-MS platform for quantitation of biomarker candidates in plasma. The Vanderbilt BDL will interact closely with a proposed EDRN Biomarker Reference Laboratory (William Pao, PI) and a proposed EDRN Clinical Validation Center (Pierre Massion, PI) at Vanderbilt as well as with EDRN network partners to broadly deploy standardized proteomic technologies for biomarker development.

描述（由申请人提供）：本申请提出了范德比尔特生物标志物发展实验室（Vanderbilt BDL），该实验室将作为 NCI 早期检测研究网络（EDRN）的组成部分。范德比尔特 BDL 将在范德比尔特-英格拉姆癌症中心的吉姆·艾尔斯癌前检测和诊断研究所内建立，该研究所提供出色的资源、仪器和致力于生物标志物开发问题的工作人员。范德比尔特 BDL 将采用标准化液相色谱-串联质谱 (LC-MS/MS) 和液相色谱-多反应监测质谱 (LC-MRM-MS) 分析平台，对蛋白质生物标志物进行公正的发现和靶向定量。这些分析平台与广泛的信息学支持基础设施以及艾尔斯研究所和范德比尔特-英格拉姆癌症中心胸部肿瘤项目正在进行的生物样本收集相结合。范德比尔特 BDL 将通过三个具体目标来实现 EDRN BDL 计划的目标：1) 开发和应用新的信息学工具和方法，以识别突变体、变体和修饰蛋白作为候选癌症生物标志物。这项工作将强调应用新的序列标记和信号分析算法和软件来识别区分癌症表型的新型蛋白质形式，2) 发现和验证用于基于血浆的结直肠癌和肺癌检测的蛋白质生物标志物候选物。这项工作将应用标准化鸟枪法蛋白质组学分析来发现组织中的候选生物标志物，并应用标准化的 LC-MRM-MS 平台来定量血浆中的候选生物标志物。范德比尔特 BDL 将与拟议的 EDRN 生物标志物参考实验室（William Pao，PI）和拟议的范德比尔特 EDRN 临床验证中心（Pierre Massion，PI）以及 EDRN 网络合作伙伴密切合作，广泛部署用于生物标志物开发的标准化蛋白质组技术。

项目成果

Proteomic analysis of Chinese hamster ovary cells.

中国仓鼠卵巢细胞的蛋白质组学分析。

• 发表时间: 2012-11-02
• 影响因子: 4.4
• 作者: Baycin;Tabb, David L;Chaerkady, Raghothama;Chen, Lily;Lewis, Nathan E;Nagarajan, Harish;Sarkaria, Vishaldeep;Kumar, Amit;Wolozny, Daniel;Colao, Joe;Jacobson, Elena;Tian, Yuan;O'Meally, Robert N;Krag, Sharon S;Cole, Robert N;Pal
• 通讯作者: Pal

IDPQuantify: combining precursor intensity with spectral counts for protein and peptide quantification.

IDPQuantify：将前体强度与光谱计数相结合，进行蛋白质和肽定量。

• 发表时间: 2013-09-06
• 影响因子: 4.4
• 作者: Chen, Yao;Chambers, Matthew C;Li, Ming;Ham, Amy;Turner, Jeffrey L;Zhang, Bing;Tabb, David L
• 通讯作者: Tabb, David L