|
| Status |
Public on Jun 03, 2024 |
| Title |
B41_244_2_BX_S9 |
| Sample type |
SRA |
| |
|
| Source name |
Breast
|
| Organism |
Homo sapiens |
| Characteristics |
tissue: Breast
Sex: Female
race: White
treatment: Untreated
|
| Extracted molecule |
total RNA |
| Extraction protocol |
RNA was extracted from paraffin-embedded baseline tumor samples
ribo-zero RNAseq libraries were made using an Illumina TruSeq Stranded Total RNA kit
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina NovaSeq 6000 |
| |
|
| Data processing |
Align the data with STAR 2.7.6a
Quantify the expression with Salmon 1.4.0
QC methods used samtools sort 1.10, Picard 2.22.4, and FastQC 0.11.9
Assembly: hg38
Supplementary files format and content: Salmon gene expression file (tab-delimited)
|
| |
|
| Submission date |
Jun 08, 2023 |
| Last update date |
Jun 03, 2024 |
| Contact name |
Charles M. Perou |
| E-mail(s) |
cperou@med.unc.edu
|
| Organization name |
University of North Carolina at Chapel Hill
|
| Department |
Professor of Genetics, and Pathology & Laboratory Medicine; Lineberger Comprehensive Cancer Center
|
| Street address |
12-044 Lineberger Comprehensive Cancer Center CB# 7295
|
| City |
Chapel Hill |
| State/province |
NC |
| ZIP/Postal code |
27599-7264 |
| Country |
USA |
| |
|
| Platform ID |
GPL24676 |
| Series (1) |
| GSE234519 |
NSABP B-41: A Study of AC Followed by a Combination of Paclitaxel Plus Trastuzumab or Lapatinib or Both Given Before Surgery to Patients With Operable HER2 Positive Invasive Breast Cancer |
|
