|
Status |
Public on Mar 17, 2021 |
Title |
D1 |
Sample type |
SRA |
|
|
Source name |
Breast
|
Organism |
Homo sapiens |
Characteristics |
disease: healthy tissue: Breast
|
Treatment protocol |
No treatment
|
Growth protocol |
These are normal human breast tissues
|
Extracted molecule |
total RNA |
Extraction protocol |
The cells from the tissue were extracted using Tumor Dissociation kit human, cat# 130-095-929 from Miltenyl Biotec. Cells were extracted from either freshly collected tissues or cryopreserved using a procedure described in PMID: 26311223 10x Genomics protocol for chromium single cell 3' reagent kits V3
|
|
|
Library strategy |
RNA-Seq |
Library source |
transcriptomic |
Library selection |
cDNA |
Instrument model |
Illumina NovaSeq 6000 |
|
|
Data processing |
CellRanger 3.0.2 was utilized to process the raw sequence data generated. The filtered gene-cell barcode matrices generated by CellRanger were used for further analysis. Seurat 3.1.0 was used for hashtag demultiplexing, data normalization, data scaling, graph-based clustering, cluster marker genes idenfification, and integrative analysis. Genome_build: GRCh38 Supplementary_files_format_and_content: HDF5 file of filtered gene-barcode matrices
|
|
|
Submission date |
Jan 15, 2021 |
Last update date |
Mar 17, 2021 |
Contact name |
Harikrishna Nakshatri |
Organization name |
Indiana University School of Medicine
|
Department |
General Surgery
|
Street address |
980 W. Walnut St. R3C218C
|
City |
Indianapolis |
State/province |
IN |
ZIP/Postal code |
46202 |
Country |
USA |
|
|
Platform ID |
GPL24676 |
Series (1) |
GSE164898 |
Single cell atlas of the healthy breast |
|
Relations |
BioSample |
SAMN17324027 |
SRA |
SRX9856808 |