PRJNA535490: Single cell analysis of Monolayer and Organoid Primary Prostate Human Epithelial Cells Derived from the same patient
概要: Single human primary prostate epithelial cells grown as a monolayer (2D) or as organoids (3D) were separated, collected and prepped for RNA-seq using the 10x Genomics Chromium Genome Reagent kit v2 Chemistry. 3,500-5,000 cells were collected from each sample and sequenced at a depth of ~45,000 genes per cells on a 2x150nt lane in a HiSeq 4000. CellRanger alignment was performed to produce the RAW data files.
项目整体设计: Two samples: monolayer cells and organoid cells
| 测序方法: |
|
| 物种: |
|
| 组织: |
|
| 健康状况: |
|
| 细胞类型: |
|
| 生长方案: |
Human prostate PrE cells were grown from collagenase digested patient tissue onto a cell culture dish until ~70 confluent. Cells were collected and frozen into aliquots. A aliquot was thawed into PrEGM media (lonza) and grown to 70% confluent and a second aliquot was thawed into 50% matrigel grown in KSFM media supplemente with DHT and charcoal stripped FBS to form organoids. |
| 处理方案: |
- |
| 提取方案: |
Organoids were collected from Matrigel by dispase and digested to single cells using TryPLE. Monolayer cells were picked up from the cell culture plate using TryPLE. Single cells were separated using 10x genomics technology. |
| 建库方案: |
Chromium Genome Reagent Kit (v2 Chemistry) |
| 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 4000 |
| 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 |
Single-cell RNA-Seq analysis identifies a putative epithelial stem cell population in human primary prostate cells in monolayer and organoid culture conditions.
American journal of clinical and experimental urology . 2019-06-15 [PMID:
31317052]
