PLINK breed data showing SLAMF1 is associated with canine atopic dermatitis

Canine atopic dermatitis (CAD) is a common inflammatory skin condition in dogs. It is a life-long problem which poses a significant welfare issue due to the chronic skin discomfort and pruritus (itch) experienced. Excessive scratching, licking and chewing cause self-trauma to the skin and increased risk of secondary infections. Several breeds are predisposed including the Labrador Retriever, Boxer and French Bulldog, suggesting a genetic component to the condition. Our access to a sizeable population of dogs genotyped on a medium density single-nucleotide polymorphism (SNP) array along with linked clinical record information allows for large-scale and highly powered genome-wide association study (GWAS) analysis. In this study, over 28 thousand dogs were used to look for genetic changes associated with CAD. We identified a statistically significant signal on canine chromosome 38, with a particularly strong association in the French Bulldog breed. Genome resequencing revealed a provocativ..., Samples DNA samples were collected via commercial testing of Wisdom Panel™ Premium, Wisdom Panel™ Essential, Wisdom Panel™ Health and Optimal Selection™ retail products, and genetic testing performed as a part of Optimal Wellness Plans® for puppies, through Banfield Pet Hospital branches (Vancouver, WA, USA) and as part of the MARS PETCARE BIOBANK™. Samples were either collected through non-invasive cheek swabbing by dog owners or veterinary professionals or through blood sampling by a veterinary professional at a Banfield Pet Hospital in line with regulations governing diagnostic testing. Consent for use of DNA data in research was obtained through the client’s agreement with terms and conditions of DNA testing through Wisdom Panel. Analysis and sequencing of cDNA were performed using samples collected from dogs participating in the Mars Petcare Biobank. All samples originated from the United States or Mexico.  Analysis An initial GWAS was performed using 14,378 single breed cases..., , # PLINK breed data showing SLAMF1 is associated with canine atopic dermatitis [https://doi.org/10.5061/dryad.np5hqc053](https://doi.org/10.5061/dryad.np5hqc053) ## Description of the data and file structure ### Corresponding Author Contact Information ``` Name: Oliver P Forman Institution: Wisdom Panel, Science and Diagnostics, Mars Petcare, US Email: [e-mail] ``` ### Dataset Overview This dataset contains the Plink data required to replicate GWAS analysis in \"A splice donor variant in *SLAMF1* is associated with canine atopic dermatitis\", Oliver P. Forman, et al. ### Description of the data and file structure Each of the datasets contains a set of binary Plink files (.bed, .bim and .bam) annotated with breed abbreviations and case and control numbers. ### Software All available data was produced and can be manipulated with the free software [Plink v1.9](https://www.cog-genomics.org/plink/) Files with the extensions bim and fam are plain text and viewable with...,犬特应性皮炎（Canine atopic dermatitis, CAD）是犬类常见的炎症性皮肤病，属于终身性疾病，因长期皮肤不适与瘙痒（pruritus）给动物福利带来显著挑战。过度抓挠、舔舐与啃咬会造成皮肤自损，并提升继发感染风险。包括拉布拉多寻回犬、拳师犬与法国斗牛犬在内的多个品种均易罹患该病，提示该疾病存在遗传基础。 我们依托一批经中等密度单核苷酸多态性（single-nucleotide polymorphism, SNP）基因分型的大型犬只群体，并结合关联临床记录信息，可开展大规模、高功效的全基因组关联分析（genome-wide association study, GWAS）。本研究纳入超过2.8万只犬只，用于搜寻与CAD相关的遗传变异。我们在犬38号染色体上鉴定出具有统计学显著性的关联信号，其中法国斗牛犬群体的关联信号尤为强烈。基因组重测序结果揭示了一个潜在致变位点…… ### 样本 DNA样本通过Wisdom Panel™ Premium、Wisdom Panel™ Essential、Wisdom Panel™ Health及Optimal Selection™零售产品的商业化检测，以及美国华盛顿州温哥华Banfield宠物医院开展的幼犬Optimal Wellness Plans®基因检测项目，亦或是作为玛氏宠物生物样本库（MARS PETCARE BIOBANK™）的一部分进行采集。样本采集方式包括犬主或兽医专业人员进行的无创颊拭子采样，或是由Banfield宠物医院的兽医按照诊断检测相关法规开展的血液采样。本研究使用DNA数据的知情同意通过客户签署Wisdom Panel基因检测服务条款与条件获取。对参与玛氏宠物护理生物样本库研究的犬只样本开展了cDNA分析与测序。所有样本均采自美国或墨西哥。 ### 分析 本研究初始全基因组关联分析纳入14378份单品种病例样本…… # 显示SLAMF1与犬特应性皮炎相关的PLINK品种数据集 [https://doi.org/10.5061/dryad.np5hqc053](https://doi.org/10.5061/dryad.np5hqc053) ## 数据与文件结构说明 ### 通讯作者联系方式 姓名：Oliver P·福尔曼 机构：Wisdom Panel（玛氏宠物护理科学与诊断部），美国 邮箱：[e-mail] ### 数据集概览 本数据集包含可复现《*SLAMF1*剪接供体变异与犬特应性皮炎相关》（Oliver P. Forman等）一文中全基因组关联分析所需的PLINK数据。 ### 数据与文件结构详情 每份数据集均包含一组二进制PLINK格式文件（.bed、.bim及.bam），文件已标注品种缩写、病例数与对照数。 ### 软件 所有可用数据均由免费软件[PLINK v1.9](https://www.cog-genomics.org/plink/)生成，且可通过该软件进行操作。扩展名为.bim与.fam的文件为纯文本格式，可通过……查看