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A comprehensive canine genetics resource including gene and variation annotation

全面的犬类遗传资源，包括基因和变异注释

基本信息

批准号：
8851713
负责人：
Kerstin Lindblad-Toh
金额：
$ 74.04万
依托单位：
BROAD INSTITUTE, INC.
依托单位国家：
美国
项目类别：
财政年份：
2015
资助国家：
美国
起止时间：
2015-08-17 至 2018-04-30
项目状态：
已结题

来源：
https://reporter.nih.gov/project-details/8851713
关键词：
Adult Age Antibodies Area Behavioral Breeding Canis familiaris Cardiovascular Diseases Cardiovascular system Cataloging Catalogs Cell Line Cells ChIP-seq Chromosome Mapping Clinical Trials Code Communities Complex Coupling Custom Data Data Display Data Set Disease Dog Diseases Drug or chemical Tissue Distribution Embryo Embryonic Development Enhancers Gene Expression Profile Gene Expression Regulation Genes Genetic Genetic Research Genetic Transcription Genome Genomics Goals Hereditary Disease Histones Human Human Genetics Human Genome Inflammatory Institutes Lifting Linkage Disequilibrium Longevity Malignant Neoplasms Maps Medical Modeling Mutation National Heart, Lung, and Blood Institute National Institute of Allergy and Infectious Disease National Institute of Arthritis and Musculoskeletal and Skin Diseases National Institute of Diabetes and Digestive and Kidney Diseases National Institute of Mental Health Neurologic Organ Pathway interactions Primary Cell Cultures Production Protein Isoforms Proteins Protocols documentation Publishing RNA Sequences Regulation Regulatory Element Research Resources Sampling Scientist Signal Transduction Specialist Structure Tissues Transcript Translating Translational Research Translations United States National Institutes of Health Untranslated RNA Variant Veterinary Schools base cell type comparative dog genome epigenomics genetic association genetic resource genetic risk factor genome annotation genome sequencing genome wide association study genome-wide genomic variation human disease improved member novel promoter public health relevance sex trait transcriptome sequencing transcriptomics treatment strategy

项目摘要

DESCRIPTION (provided by applicant): The dog is becoming an increasingly important biomedical model for human diseases such as cancer, inflammatory, cardiovascular and behavioural diseases. The unique breed structure makes trait mapping particularly efficient. While a genome, basic annotation and SNP catalog have been available since 2004, improved genomic resources would allow a more efficient identification of disease genes, pathways and mutations. In this project we aim to improve the canine genomic resources by creating a more comprehensive genome annotation along with extensive genomic data from the dog genetic community as a track data hub on the UCSC Genome Browser. Six dogs, euthanized for other medical reasons, will donate 30 tissues each for RNA- sequencing and 11 primary cell cultures for both RNA-sequencing and ChIP-sequencing for five histone antibodies. A sample will also be obtained for whole genome sequencing of each dog. This will yield an extensive transcriptome resource for 30 tissues and the first genome-wide catalog of regulatory elements in the dog. Embryonic dog tissue will also be obtained for RNA- sequencing from embryos already sacrificed for other scientific studies.The RNA-sequencing data will be combined with previous human and dog gene annotations in a custom annotation pipeline, to result in an improved dog gene annotation, based largely on species-specific information. All of the above data, along with the new gene annotation and data gathered from the dog genetics community will be hosted at the Broad Institute on the UCSC Genome Browser, enabling access to these resources by dog scientists around the world. These genomic resources will vastly increase the utility of the dog as a biomedical model and will accelerate dog genetics, and translational research arising from the study of the dog model. Collaborators for this important project include Drs Sharp and Ferrer, veterinary specialists at Tufts Veterinary School, Dr. Meyers-Wallen, an expert in dog embryonic development, Dr Lander and the Broad Institute Genomics Platform, experts in sequencing, Drs Regev and Grabherr, experts at transcriptomics and genome regulation and Drs Haussler and Kent, leaders of the UCSC genome browser.