Gene Expression Nebulas
基于标准化流程分析的转录图谱综合数据库

Gene Expression Nebulas

多物种转录图谱整合数据库

PRJEB27793: Single-cell RNA-seq of of human dermal fibroblasts (supplementary - different stimulation conditions of dsRNA)

来源: EBI / ERA1546636
提交时间: Jul 7 2018
释放时间: Jul 7 2018
最后更新时间: Jul 7 2018

概要: Dermal fibroblasts from one human individual were stimulated with dsRNA (poly I:C) in a time course of 2,4 and 6 hours. In one time course - the dsRNA was removed after 30mins, in a second time course it was removed after 1 hour, while in the third the dsRNA was kept in medium for the entire time course. Following collection, cells were profiled using the Smart-seq2 protocol.

项目整体设计: The innate immune response - the expression programme that is initiated once a pathogen is sensed - is known to be variable among responding cells, as well as to rapidly evolve in the course of mammal evolution. To study the transcriptional divergence and cell-to-cell variability of this response, we stimulated dermal fibroblast cells from two primates (human and macaque) and two rodents (mouse and rat) with dsRNA - a mimic of viral RNA that elicits a rapid innate immune response. Subsequently, we profiled the response using bulk RNA-seq, scRNA-seq and ChIP-seq across the four species and across different time points.

GEN 数据集:
GEND000246
测序方法:
物种:
健康状况:
细胞类型:
方案
生长方案: -
处理方案: -
提取方案: Single-cell RNA-seq of of human dermal fibroblasts (supplementary - different stimulation conditions of dsRNA)
建库方案: The innate immune response - the expression programme that is initiated once a pathogen is sensed - is known to be variable among responding cells, as well as to rapidly evolve in the course of mammal evolution. To study the transcriptional divergence and cell-to-cell variability of this response, we stimulated dermal fibroblast cells from two primates (human and macaque) and two rodents (mouse and rat) with dsRNA - a mimic of viral RNA that elicits a rapid innate immune response. Subsequently, we profiled the response using bulk RNA-seq, scRNA-seq and ChIP-seq across the four species and across different time points.
测序信息
分子类型: poly(A)+ RNA
库的片段类型: PAIRED
库的链类型: -
测序平台: ILLUMINA
测序仪型号: Illumina HiSeq 2500
链特异性: Unspecific
样本
基本信息:
样本描述:
生物条件:
实验变量:
方案:
测序信息:
质量评估:
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
文章
Gene expression variability across cells and species shapes innate immunity.
Nature . 2018-10-24 [PMID: 30356220]