| 项目编号 |
PRJCA019016 |
| 项目标题 |
Spatial transcriptomic profiling of gastric tumors |
| 涉及领域 |
Medical |
| 数据类型 |
Transcriptome or Gene expression
|
| 物种名称 |
Homo sapiens
|
| 描述信息 |
FFPE samples of ICI-12 (partial response, MSI-H) and GC-97(potential responder, MSS) were firstly stained with mIHC protocol described above to identify the locations of T-bet+-PD-L1+ niches. Then adjacent FFPE slides were processed following the GeoMx DSP slide preparation user manual. Slides were baked in an oven at 60 °C for at least 3 h to retrieve antigens. Proteinase K was added to digest the proteins after deparaffination and hydration. The slides were incubated with WTA probe mix overnight. On the second day, the slides were stained with PD-L1, CD45, PanCK, and Syto13 for 2 h. Three concentric circles on each T-bet+-PD-L1+ niche were chosen as regions of interest (ROIs). Oligoes from ROIs were collected by UV-cleavage. PCR reactions were purified. Libraries were paired-end sequenced. Raw counts of all ROIs were obtained by GeoMx DSP data analysis software. Reads were further normalized using Q3 normalization approach with background subtraction. |
| 样品范围 |
Multiisolate |
| 发布日期 |
2023-08-14 |
| 项目资金来源 |
| 机构 |
项目类型 |
授权项目ID |
授权项目名称 |
| Ministry of Science and Technology of the People's Republic of China (MOST)
|
National Key Technologies R&D Program
|
2017YFC1308900
|
|
|
|
| 提交者 |
Yunpeng
Liu (ypliu@cmu.edu.cn)
|
| 提交单位 |
The First Hospital of China Medical University |
| 提交日期 |
2023-08-13 |
