IMAT-ITCR Collaboration: Hyperplex lineage analysis of tumor cell states in vivo

摘要 肿瘤细胞的异质性和肿瘤细胞状态的动态变化是导致肿瘤发生的主要因素。 起始、生长、转移和治疗抗性。斯奈德实验室和柳井实验室分别是 在NCI资助的独立研究中开发自己的技术，分别可视化肿瘤 高光谱谱系示踪小鼠模型的异质性（NCI IMAT，Snyder，MousePaint）或 使用单细胞基因组学技术（NCI）重建空间关系和癌细胞状态 ITCR，柳井，SNAP）。我们的假设是，应用MousePaint和SNAP技术， 相同的数据集将对这些技术进行基准测试，用于（1）查看数千种颜色（即克隆）， 体内和（2）从scRNAseq数据推断肿瘤邻域。提出了两个目标。目标1.到 生成MousePaint细胞系，用于评估颜色多样性和克隆邻域， 高光谱成像。目标二。通过配准单个单元格对SNAP和MousePaint进行基准测试 基因组学数据与MousePaint成像数据。合作补充将有大量的 通过提供新的模型和算法，对每个家长奖产生积极的影响。 Snyder的超复杂谱系追踪策略以及为柳井博士的 SNAP单细胞基因组学方法。我们希望这些研究1）验证研究资源 社区研究肿瘤异质性和2）提供新的见解发生在早期的变化， 在癌症发生和生长期间的肿瘤微环境。

ABSTRACT Tumor cell heterogeneity and dynamic changes to tumor cell states are major contributors to tumor initiation, growth, metastasis, and treatment resistance. The Snyder lab and the Yanai lab are each developing their own technologies in separate NCI funded studies for respectively visualizing tumor heterogeneity in mouse models with hyperspectral lineage tracing (NCI IMAT, Snyder, MousePaint) or reconstructing spatial relationships and cancer cell states using single cell genomics technology (NCI ITCR, Yanai, SNAP). Our hypothesis is that application of the MousePaint and SNAP technologies on the same dataset will benchmark these technologies for (1) viewing thousands of colors (i.e. clones) in vivo and for (2) inferring tumor neighborhoods from scRNAseq data. Two aims are proposed. Aim 1. To generate MousePaint cell lines for assessing color diversity and clonal neighborhoods using hyperspectral imaging. Aim 2. Benchmarking SNAP and MousePaint by coregistering single cell genomics data with MousePaint imaging data. The collaborative supplement will have substantial positive impact on each parent award by providing new models and algorithms for benchmarking Dr. Snyder’s hyperplex lineage tracing strategies as well as providing experimental models for Dr. Yanai’s SNAP single cell genomics approaches. We expect these studies to 1) validate resources for the research community to study tumor heterogeneity and 2) provide new insight into the early changes that occur in the tumor microenvironment during cancer initiation and growth.