Genomic Resources for the Collaborative Cross

协作杂交的基因组资源 根据NIH FOA PAR-17-273 PI：伦纳德麦克米兰 我们建议为实验遗传学开发独特的和前所未有的基因组资源 社区支持协作交叉（CC）。CC是一种新兴的遗传资源 由70多个新的同基因小鼠品系组成，其基因组来自8个创始人， 捕捉了小家鼠的大部分多样性。正如6月份的《遗传学》杂志所报道的， 最近对每个CC菌株的样本进行了全基因组测序。该提案的目的将 是： 1.组装和注释每个可重复CC菌株的独特个体基因组。 2.提供使用CC辅助实验设计的工具。尤其是如何设计 重组近交系杂交，其提供足够大小的一组平衡和 可复制的远系繁殖样本。我们还将提供修复特定基因以进行测试的工具 不同的遗传背景。 3.我们建议开发定制的组学分析管道，利用前所未有的 基因组学注释可用于CC以支持探索等位基因特异性效应。 我们的主要目标是引导CC在医学研究界的使用， 希望经过五年的支持，这些资源将通过出售老鼠自我维持， 银河系的基因核心设施 该提案有两名主要研究者（PI）。联系PI是来自以下学校的伦纳德麦克米兰教授 计算机科学系。PI Fernando Pardo-Manuel de维莱纳博士也加入了他的行列。博士 McMillan在过去的8年中一直是CC的主要生物信息学专家和工具开发人员 多年的发展。Pardo-Manuel de维莱纳博士是一位遗传学家， 合作十字架我们一起带来了计算生物学，遗传学， 基因组学，以确保CC是首要的哺乳动物遗传参考群体和来源， 人类疾病的新小鼠模型。

Genomic Resources for the Collaborative Cross In response to NIH FOA PAR-17-273 PI: Leonard McMillan We propose to develop unique and unprecedented genomic resources for the experimental genetics community in support of the Collaborative Cross (CC). The CC is an emergent genetics resource consisting of more than seventy new isogenic mouse strains with genomes derived from eight founders that captures most of diversity in Mus musculus. As reported in June’s issue of Genetics, we have recently done full-genome sequencing for samples from each CC strain. The Aims of this proposal will be: 1. To assemble and annotate unique individual genomes for each reproducible CC strain. 2. To provide tools that aid in experimental designs using the CC. In particular, how to design recombinant inbred intercrosses, that provide a sufficiently sized set of balanced and reproducible outbred samples. We will also provide tools that fix particular genes for testing against variable genetic backgrounds. 3. We propose to develop custom -omics analysis pipelines that leverage the unprecedented genomics annotation available for the CC to support the exploration allele specific effects. Our primary goal is to bootstrap the use of the CC within the medical research community, with the hopes that after the five years of support these resources will be self-sustaining through selling mice by the UNC System’s Genetics Core facility. This proposal has two Principal Investigators (PIs). The contact PI is Professor Leonard McMillan from UNC’s department of Computer Science. He is joined by PI Fernando Pardo-Manuel de Villena, PhD. Dr. McMillan has been the primary bioinformatics expert and tool developer for the CC over the past 8+ years of its development. Dr. Pardo-Manuel de Villena is a geneticist who led the development of the Collaborative Cross. Together we bring extensive expertise in computational biology, genetics, and genomics to ensure that the CC is the premier mammalian genetic reference population and a source of new mouse models of human disease.