A Proteogenomic Search Engine for Direct Mass Spectrometric Identification of Variant Proteins Using Genomic Data

使用基因组数据直接质谱鉴定变异蛋白的蛋白质组搜索引擎

• 批准号: 10259859
• 负责人: Paul Anthony Rudnick
• 金额: $ 55.02万
• 依托单位: SPECTRAGEN INFORMATICS, LLC
• 依托单位国家: 美国
• 财政年份: 2017
• 资助国家: 美国
• 起止时间: 2017-09-01 至 2023-02-28
• 项目状态: 已结题
• 来源: https://reporter.nih.gov/project-details/10259859
• 关键词: Agreement; Cancer Vaccines; Clinical; Communities; Complement; Computer software; Custom; Data; Data Analyses; Databases; Deposition; Detection; Development; Diagnostic; Environment; Future; Gefitinib; Genetic Databases; Genetic Diseases; Genetic Variation; Genomics; Goals; Guidelines; Heterozygote; Human Genome; Individual; Informatics; Intuition; Ions; Isomerism; Knowledge; Licensing; Malignant Neoplasms; Marketing; Mass Spectrum Analysis; Methods; Modeling; Modification; Monitor; Mutate; Mutation; Mutation Detection; Pathway interactions; Peptides; Performance; Phase; Post Translational Modification Analysis; Privatization; Probability; Protein Databases; Proteins; Proteome; Proteomics; Publications; Readability; Reading; Research; Resolution; Resources; Risk; Running; Sales; Sampling; Scientist; Services; Small Business Innovation Research Grant; Testing; Transcript; Validation; Variant; Visualization; Visualization software; Work; base; commercialization; cost; experience; genomic data; graphical user interface; human reference genome; improved; next generation sequencing; open source; protein expression; proteogenomics; prototype; repository; scaffold; search engine; searchable database; support vector machine; targeted treatment; tool; transcriptome sequencing

Project Summary / Abstract Mass spectrometry-based proteomics, used in conjunction with genomics, has been called proteogenomics. Recent exponential increases in variant identification by next-generation sequencing (NGS) is redefining the concept of the human genome/proteome. Our project is the commercialization of a first-to-market proteomic database search engine for mass spectrometry capable of directly reading NGS data for the identification of mutilations from individual samples or from curated resources. Such an offering has the potential to bring together these two fields, enabling validation of mutations at the protein-level. Mutated proteins have been shown to make ideal targets for drug therapies and diagnostics in cancer. Our software will provide an intuitive user experience, approachable by scientists who may not be expert both proteomic and genomic data analysis. Since the search engine is guided by prior knowledge, performance exceeds current practice. The software will come complete with a full array of post-processing validation, and visualization tools.

项目摘要/摘要 基于质谱学的蛋白质组学，与基因组学结合使用，被称为蛋白质组学。 最近通过下一代测序(NGS)识别变异体的指数增长正在重新定义 人类基因组/蛋白质组的概念。我们的项目是第一个进入市场的蛋白质组的商业化 可直接读取NGS数据进行鉴定的质谱学数据库搜索引擎 从单个样本或从经过管理的资源中进行切割。这样的供货有可能带来 这两个领域结合在一起，使得在蛋白质水平上验证突变成为可能。突变的蛋白质已经被 被证明是癌症药物治疗和诊断的理想靶点。我们的软件将提供直观的 用户体验，可能不是蛋白质组和基因组数据专家的科学家可以接近 分析。由于搜索引擎是由先验知识指导的，因此性能超出了当前的实践。这个 软件将配备一整套后处理验证和可视化工具。