|
| Status |
Public on Mar 02, 2023 |
| Title |
breast tissue, mRNA-derived cDNA, rep 1 |
| Sample type |
SRA |
| |
|
| Source name |
Breast tissue
|
| Organism |
Homo sapiens |
| Characteristics |
tissue: Breast tissue
cell type: Multiple cell types
library type: Transcript
antibodies/tags: None
|
| Treatment protocol |
N/A
|
| Growth protocol |
N/A
|
| Extracted molecule |
polyA RNA |
| Extraction protocol |
Fresh reduction mammoplasty tissue was processed according to Murrow et al (2022) doi: https://doi.org/10.1016/j.cels.2022.06.005
Libraries were prepared using 10X Chromium Next GEM Single Cell 3' Kit v3.1
Single-cell RNA-Seq with MULTIseq workflow
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic single cell |
| Library selection |
cDNA |
| Instrument model |
Illumina NovaSeq 6000 |
| |
|
| Description |
3' mRNA library: read1 file contains cell barcode and molecular index; read2 file contains transcript
poly A RNA
|
| Data processing |
The processed matrices for gene expression and MULTIseq barcode were subsetted to cells classified to the patients described in the study.
Assembly: GRCh38-3.0.0
Supplementary files format and content: Folder containing raw FASTQ files for gene expression (RNA) and MULTIseq barcode (HTO) matrices; Folder containing processed matrices for gene expression (RNA) and MULTIseq barcode (HTO)
|
| |
|
| Submission date |
Mar 01, 2023 |
| Last update date |
Mar 02, 2023 |
| Contact name |
Iain Christopher Clark |
| Organization name |
University of California, Berkeley
|
| Street address |
374 Stanley Hall
|
| City |
Berkeley |
| State/province |
CA |
| ZIP/Postal code |
94720 |
| Country |
USA |
| |
|
| Platform ID |
GPL24676 |
| Series (2) |
| GSE202919 |
Microfluidics-free single-cell genomics with templated emulsification |
| GSE226391 |
Analysis of cell type heterogeneity in breast tissue II |
|
| Relations |
| BioSample |
SAMN33560004 |
| SRA |
SRX19543309 |
