Biomarker Development Laboratory

项目摘要（BDL） 最近，使用不依赖于培养物的技术来表征微生物组已经导致鉴定了微生物。 与肺癌诊断和预后相关的体循环中的微生物特征。 这项提议的顾问们描述了鉴定微生物DNA的鸟枪宏基因组学如何能够 可用于鉴定血浆中预测不同癌症（包括肺癌）的微生物特征。我们 来自我们纽约大学EDRN档案的初步数据显示，宏基因组特征可以预测早期- 晚期非小细胞肺癌（NSCLC）与非NSCLC相比。在这一组中，我们还发现 与预后（复发）相关的下呼吸道中存在的微生物和宿主转录组特征。 这些数据支持微生物和宿主基因组特征可用于开发新的生物标志物， 这种疾病的早期阶段。Omic方法可以以无偏见的方式探索这些签名， 确定预测NSCLC诊断和预后的最佳表现特征。此外，本发明还提供了一种方法， 代谢组学环境的评估可以进一步揭示其他潜在的生物标志物，因为它与代谢相关。 微生物和宿主的代谢。因此，本提案的目标是利用我们的NSCLC档案来评估 微生物宏基因组学和宿主转录组学特征与使用血液的代谢组学方法配对 样本开发新的生物标志物特征，预测早期NSCLC疾病（目标1）。然后我们将 评估来自患者下呼吸道样本的宏基因组、代谢组和宿主转录组数据 与早期NSCLC，以确定预测肺癌复发的特征（目的2）。最后，使用 综合多组学方法，我们将优化目标3中最佳性能特征的选择。队列 这些调查的选择将分为发现和验证。成功的生物标志物将 进行外部验证。这里生成的数据将作为不可知论方法的基础， 确定高度预测性的生物标志物，这些生物标志物将为目标方法的开发和验证提供支持， 生物标志物参考实验室（BRL）

Project summary (BDL) Recently, the use of culture independent techniques to characterize the microbiome has led to identification of microbial signatures in the systemic circulation associated with lung cancer diagnosis and prognosis. Consultants in this proposal have described how shotgun metagenomics, which identifies microbial DNA, can be used to identify microbial signatures in plasma predictive of different cancers, including lung cancer. Our preliminary data from our NYU EDRN archives show that metagenomic signatures can be predictive of early- stage non-small cell lung cancer (NSCLC) compared to non-NSCLC. In this cohort, we have also identified microbial and host transcriptomic signatures present in the lower airways associated with prognosis (recurrence). These data support that microbial and host genomic signatures could be used to develop novel biomarkers in early stages of this disease. Omic approaches can explore these signatures in an unbiased fashion, allowing for identification of best performing features for predicting, in this case, NSCLC diagnosis and prognosis. In addition, evaluation of the metabolomic environment can further uncover other potential biomarkers as it relates to the metabolism of microbes and host. Therefore, the goal of this proposal is to utilize our NSCLC archives to evaluate microbial metagenomic and host transcriptomic features paired with metabolomic approaches using blood samples to develop novel biomarker signatures that predict early-stage NSCLC disease (Aim 1). We will then evaluate the metagenome, metabolome and host transcriptomic data from lower airway samples from patients with early-stage NSCLC to identify features predictive of lung cancer recurrence (Aim 2). Finally, using an integrated multi-omic approach, we will optimize the selection of best performing features in Aim 3. The cohort selected for these investigations will be divided in Discovery and Validation. Successful biomarkers will then undergo external validation. The data generated here will serve as the foundation of an agnostic approach to identify highly predictive biomarkers that will feed the development and validation for targeted approaches under the Biomarkers Reference Laboratory (BRL).