|
| Status |
Public on Sep 07, 2023 |
| Title |
Patient PDAC_48 Tumor scRNAseq |
| Sample type |
SRA |
| |
|
| Source name |
Primary tumor
|
| Organism |
Homo sapiens |
| Characteristics |
tissue: Primary tumor
|
| Extracted molecule |
polyA RNA |
| Extraction protocol |
Freshly resected human PDAC samples were minced in small pieces and digested with the Tumor Dissociation kit, human (Miltenyi Biotec). For the patient LiMeT PDAC15, cells were enriched in the myeloid fraction as CD45+CD3-CD19- by sorting into FACSAria instrument (BD Biosciences). Human PB samples were incubated with Red Blood Cell (RBC) lysis buffer (Biolegend) for 10 minutes on ice and washed with Phosphate Buffered Saline (PBS). Cells were centrifuged for 5 minutes at 450 x g and resuspended in the appropriate buffer for down-stream application.
scRNA-Seq libraries were generated using a microfluidics-based approach on Chromium Single-Cell Controller (10X Genomics) using the Chromium Single Cell 3′ Reagent Kit v3.1, according to the manufacturers’ instructions
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic single cell |
| Library selection |
cDNA |
| Instrument model |
Illumina NovaSeq 6000 |
| |
|
| Description |
10X Genomics
|
| Data processing |
Fastq files were processed with Cell Ranger (v 4.0.0), using default parameters
Assembly: hg38
Supplementary files format and content: Tab-separated values files and matrix files (gzipped format)
|
| |
|
| Submission date |
Nov 12, 2022 |
| Last update date |
Sep 07, 2023 |
| Contact name |
Renato Ostuni |
| Organization name |
San Raffaele Telethon Institute for Gene Therapy
|
| Street address |
Via Olgettina 58
|
| City |
Milano |
| ZIP/Postal code |
20132 |
| Country |
Italy |
| |
|
| Platform ID |
GPL24676 |
| Series (2) |
| GSE217845 |
IL-1b+ tumor-associated macrophages fuel pathogenic inflammation in pancreatic cancer - scRNAseq of human PDAC samples |
| GSE217847 |
IL-1b+ tumor-associated macrophages fuel pathogenic inflammation in pancreatic cancer |
|
| Relations |
| BioSample |
SAMN31700946 |
| SRA |
SRX18243183 |
