设置蛋白Panel
蛋白列表
根据生物体选择一个合适的蛋白列表，这个文件是 PID 比对需要的。
| Species | Protein panel | MD5 | Cocktail information |
|---|---|---|---|
| mouse | ProteinPanel_128_mouse_V2.list | 8745033762db89d5a4096232e54e6521 | TotalSeq-A™ Mouse Universal Cocktail, V1.0 (Cat. No. 199901) |
| human | ProteinPanel_163_human_V2.list | 64a20baa464ba38aa1f7f93286b18bed | TotalSeq-A™ Human Universal Cocktail, V1.0 (Cat. No. 399907) |
*查询 Cocktail了解更多细节。
##with wget
#mouse
wget -c https://demo.stomicsdb.tech/STOmics_Reference_Released/Protein_Panel/ProteinPanel_128_mouse_V2.list
#human
wget -c https://demo.stomicsdb.tech/STOmics_Reference_Released/Protein_Panel/ProteinPanel_163_human_V2.list
##with curl
#mouse
curl -C - -O https://demo.stomicsdb.tech/STOmics_Reference_Released/Protein_Panel/ProteinPanel_128_mouse_V2.list
#human
curl -C - -O https://demo.stomicsdb.tech/STOmics_Reference_Released/Protein_Panel/ProteinPanel_163_human_V2.list
列表指定了时空蛋白转录组Stereo-CITE 实验中使用的抗体。每列由 Tab 分隔，且定义如下：
| Column name | Decription |
|---|---|
PIDIndex |
Required. Protein index. Only accepts integer numbers and ensures each is unique. |
PIDSequence |
Required. Protein reference sequence in 15bp. |
PIDName |
Required. Only accepts letters [a-zA-Z], digits [0-9], and 4 symbols ["(", ")", "-", "_"]. |
GeneName |
Required. Coding gene(s) of the corresponding protein. Multiple coding genes are separated by "/". If you don't know, please fill in None. |
GeneID |
Required. Coding gene(s) Ensembl ID. Multiple IDs are separated by "/". If you don't know, please fill in None. |
Reference libraries
用于构建 --ref-libraries 的 CSV文件，整合蛋白列表和转录组 STAR 参考索引。
Reference,Type
/saw/datasets/reference/transcriptome,STAR
/saw/datasets/reference/ProteinPanel.list,ProteinMap
--ref-libraries <CSV> 在SAW count Stereo-CITE 分析中为必要输入。