PRJNA604722: Single-cell RNA sequencing quantitative analysis of PBMC transcriptomes from dogs with atopic dermatitis and healthy dogs
概要: We used Drop-seq and next generation sequencing to determine gene expression differences in dogs with atopic dermatitis and healthy dogs in peripheral blood mononuclear cells in an unbiased way. Using Seurat, we find 13 discrete immune cells clusters, including a cluster enriched for Gata3 expressing T cells with 95 differentially expressed genes between healthy and allergic dogs.
项目整体设计: PBMCs from 5 dogs diagnosed with atopic dermatitis and 5 matched healthy dogs were analyzed using Drop-seq and Seurat, and analyzed on a NextSeq500.
| 生长方案: |
- |
| 处理方案: |
- |
| 提取方案: |
PBMCs were isolated from canine blood using density gradient centrifugation with Ficoll- Paque Premium (GE Healthcare, Chicago, IL, USA) and washed in flow cytometry buffer. |
| 建库方案: |
Drop-seq protocol provided online by MacCarroll lab (version 3.1, 12/28/2015). Nextera XT Library Preparation Kit; Drop-seq protocol provided online by MacCarroll lab (version 3.1, 12/28/2016). Nextera XT Library Preparation Kit; Drop-seq protocol provided online by MacCarroll lab (version 3.1, 12/28/2017). Nextera XT Library Preparation Kit; Drop-seq protocol provided online by MacCarroll lab (version 3.1, 12/28/2018). Nextera XT Library Preparation Kit; Drop-seq protocol provided online by MacCarroll lab (version 3.1, 12/28/2019). Nextera XT Library Preparation Kit; Drop-seq protocol provided online by MacCarroll lab (version 3.1, 12/28/2021). Nextera XT Library Preparation Kit; Drop-seq protocol provided online by MacCarroll lab (version 3.1, 12/28/2022). Nextera XT Library Preparation Kit; Drop-seq protocol provided online by MacCarroll lab (version 3.1, 12/28/2023). Nextera XT Library Preparation Kit; Drop-seq protocol provided online by MacCarroll lab (version 3.1, 12/28/2024). Nextera XT Library Preparation Kit |
| 分子类型: |
poly(A)+ RNA |
| 库的片段类型: |
PAIRED |
| 库的链类型: |
Forward |
| 测序平台: |
ILLUMINA |
| 测序仪型号: |
Illumina NextSeq 500 |
| 链特异性: |
Specific |
| 数据来源 |
GEN样本编号 |
GEN数据集编号 |
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样本编号 |
样本名称 |
生物样本编号 |
样本访问号 |
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提交时间 |
最后更新时间 |
物种 |
种族 |
族裔 |
年龄 |
年龄单位 |
性别 |
来源名称 |
组织 |
细胞类型 |
细胞亚型 |
细胞系 |
疾病 |
疾病状态 |
发育阶段 |
突变/变异 |
表型 |
Condition Detail |
生长方案 |
处理方案 |
提取方案 |
建库方案 |
分子类型 |
库的片段类型 |
链特异性 |
库的链类型 |
加标（Spike-In） |
测序方法 |
测序平台 |
测序仪型号 |
细胞数 |
测序片段数 |
碱基数 |
平均测序片段长度_1 |
平均测序片段长度_2 |
唯一比对率 |
多重比对率 |
覆盖度 |
Elevated circulating Th2 but not group 2 innate lymphoid cell responses characterize canine atopic dermatitis.
Veterinary immunology and immunopathology . 2020-01-24 [PMID:
32058160]
