Gene Expression
Nebulas
Gene Expression Nebulas概要: To gain a deeper understanding of the pathophysiology of AD, we conducted a large-scale transcriptomic study of AD with deeply-sequenced RNA-seq samples using long (125b) paired-end reads. By integrating deep sequencing-based skin transcriptome profiling with systems biology analysis, we are able to provide deep characterization for the expression signatures for AD, and by including psoriasis samples in the analysis, we can reveal the distinct molecular features of uninvolved and lesional skin of AD that have not been previously described.
项目整体设计: We performed high-depth sequencing of 147 skin transcriptomes obtained from a carefully matched and tightly defined cohort of 27 AD patients, 28 PSO patients, and 38 healthy controls, whom were recruited within an ongoing investigator-initiated clinical study to identify shared and distinct disease mechanisms of AD and Psoriasis.
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| 生长方案: | - |
| 处理方案: | - |
| 提取方案: | 5mm skin punch biopsies were stored in PaxGene tissue containers (PreAnalytiX) at -80°C until isolation of total RNA with the Qiagen AllPrep DNA/RNA Mini Kit preceded by an additional disruption/homogenization step with innuSPEED Lysis Tubes W (Analytik Jena) and Qiagen QIAshredder spin-columns. |
| 建库方案: | RNA samples were prepared for sequencing using the Illumina Truseq Stranded total RNA Protocol in combination with the RiboZero rRNA removal Kit and sequenced on the HiSeq2500 with 2x125bp. |
| 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 HiSeq 2500 |
| 链特异性: | Specific |
| 数据来源 | GEN样本编号 | GEN数据集编号 | 系列编号 | 项目编号 | 样本编号 | 样本名称 | 生物样本编号 | 样本访问号 | 实验访问号 | 释放时间 | 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 |
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