Genomic Resources for the Collaborative Cross

协作交叉的基因组资源

基本信息

批准号：
10133118
负责人：
Leonard McMillan
金额：
$ 34.82万
依托单位：
UNIV OF NORTH CAROLINA CHAPEL HILL
依托单位国家：
美国
项目类别：
财政年份：
2018
资助国家：
美国
起止时间：
2018-05-17 至 2023-03-31
项目状态：
已结题

来源：
https://reporter.nih.gov/project-details/10133118
关键词：
Address Alleles Animal Model Base Pairing Bioinformatics Biological Assay Biomedical Research Communities Computational Biology Core Facility Custom Databases Development Disease model Doctor of Philosophy Ensure Exhibits Experimental Designs Experimental Genetics Foundations Founder Effect Genetic Genetic Variation Genome Genomic Segment Genomics Genotype Goals House mice Inbred Strain Inbred Strains Mice Inbreeding Individual Inherited Knowledge Laboratories Laboratory mice Mammalian Genetics Medical Research Methods Modeling Monitor Mouse Strains Mus Online Systems Phenotype Population Population Genetics Principal Investigator Probability RNA Recombinants Reporting Reproducibility Research Personnel Resolution Resource Informatics Resources Sampling Source System The Jackson Laboratory Transcript United States National Institutes of Health Update Validation Variant analysis pipeline computer science design experimental study functional genomics genetic approach genetic resource genetic testing genome browser genome sequencing genomic tools human disease human model mouse genome mouse model novel professor reference genome response structural genomics tool transcriptome web-based tool whole genome

Address Alleles Animal Model Base Pairing Bioinformatics Biological Assay Biomedical Research Communities Computational Biology Core Facility Custom Databases Development Disease model Doctor of Philosophy Ensure Exhibits Experimental Designs Experimental Genetics Foundations Founder Effect Genetic Genetic Variation Genome Genomic Segment Genomics Genotype Goals House mice Inbred Strain Inbred Strains Mice Inbreeding Individual Inherited Knowledge Laboratories Laboratory mice Mammalian Genetics Medical Research Methods Modeling Monitor Mouse Strains Mus Online Systems Phenotype Population Population Genetics Principal Investigator Probability RNA Recombinants Reporting Reproducibility Research Personnel Resolution Resource Informatics Resources Sampling Source System The Jackson Laboratory Transcript United States National Institutes of Health Update Validation Variant analysis pipeline computer science design experimental study functional genomics genetic approach genetic resource genetic testing genome browser genome sequencing genomic tools human disease human model mouse genome mouse model novel professor reference genome response structural genomics tool transcriptome web-based tool whole genome

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项目摘要

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.

协作十字架的基因组资源响应NIH FOA PAR-17-273 PI：伦纳德·麦克米伦（Leonard McMillan）我们建议为实验遗传学开发独特和前所未有的基因组资源社区支持协作十字架（CC）。 CC是一种紧急遗传资源由八个创建者得出的基因组的70多种新的等生小鼠菌株组成这捕获了Mus Musculus的大部分多样性。正如6月份的遗传学中报道的那样，我们有最近，对每个CC菌株的样品进行了全基因组测序。该提议的目的将是： 1。为每个可再现的CC菌株组装和注释独特的单个基因组。 2。提供有助于使用CC实验设计的工具。特别是如何设计重组近交近交叉，提供一组足够尺寸的平衡和可再现的杂种样品。我们还将提供修复用于测试特定基因的工具反对可变的遗传背景。 3。我们建议开发利用前所未有的自定义 - 组分析管道 CC可用于支持勘探等位基因特定效应的基因组学注释。我们的主要目标是引导医学研究界的CC使用，并与希望经过五年的支持，这些资源将通过出售老鼠的自我维持 UNC系统的遗传学核心设施。该提案有两名主要研究人员（PIS）。联系PI是来自Leonard McMillan教授 UNC的计算机科学系。 Pi Fernando-Pardo-Manuel de Villena博士也加入了他的行列。博士麦克米伦（McMillan）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 Villena博士是一位遗传学家，领导了协作十字架。我们一起为计算生物学，遗传学和基因组学确保CC是首要的哺乳动物遗传参考人群，并且是新的人类疾病的小鼠模型。