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

PRJNA481477: Single cell RNA-sequencing reveals the existence of naïve and primed pluripotency in pre-implantation rhesus monkey embryos [161 cells]

来源: NCBI / GSE117218
提交时间: Jul 17 2018
释放时间: Aug 26 2018
最后更新时间: Aug 26 2018

概要: To explore the dynamic change of transcriptome in pre-implantation of rhesus monkey, we collected single cells for RNA-sequencing.

项目整体设计: We collected 161 ICM single cells from rhesus monkey early embryos encompassing the stages of early blastocyst, middle blastocyst, late blastocyst and hatching blastocyst.

GEN 数据集:
GEND000248
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: To collect single blastomeres, embryos with good quality were transferred into 0.1% Pronase(Merck) in PBS to remove zona pellucida, followed by three washes in 0.05% PVP-PBS. To distinguish the outer and inner cells, embryos were incubated with PKH26 dye (Sigma) which labels the live outer cells with red fluorescence. After labeling, the embryos were washed for three times in PVP-PBS and cut off the blastocele with 1 mL syringe. Then the remaining embryo tissues were rinsed with Ca2+/Mg2+ free PVP-PBS and treated with 0.125% trypsin-EDTA for at least 5 min at 37℃ until the cell surface looks rough. Disaggregating was done by a mouth pipette aided by several finely pulled glass capillaries of different internal diameter. After most cells were separated apart, single cells were individually transferred into small droplets of 0.1% BSA-PBS and the inner/outer cell identity was identified by the fluorescent microscopy. Cells showing no fluorescence were inner cells, whereas those with red fluorescence were outer cells.
建库方案: Briefly, single cells were washed three times in BSA-PBS and those with a clear round shape were added into cell lysis buffer, followed by First-strand cDNA synthesis and PCR amplification. PCR products were purified by Ampure XP beads and used for libraries construction.Libraries were deep sequenced on Illumina X-ten platform, using 150-bp paired-end strategy.
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 X Ten
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
Single-cell RNA-sequencing reveals the existence of naive and primed pluripotency in pre-implantation rhesus monkey embryos.
Genome research . 2018-08-28 [PMID: 30154223]