|
| Status |
Public on Aug 18, 2024 |
| Title |
R1 at weeks 5-7 [Myeloid] |
| Sample type |
RNA |
| |
|
| Source name |
PBMC from recurrence mouse 1 at weeks 5-7
|
| Organism |
Mus musculus |
| Characteristics |
strain: BALB/c
group: Recurrence
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Mouse blood was collected with Microtainer® (BD) with EDTA and incubated with 3 ml ACK lysis buffer (Gibco) for 5 min at room temperature to lyse red blood cells. PBMC were spun down by centrifugation at 1500 rpm for 10 min at 4℃ and washed twice with phosphate-buffered saline (PBS). RNA of PBMC was isolated by using Direct-Zol RNA Miniprep Kits (ZYMO RESEARCH) according to manufacturer instructions.
|
| Label |
NanoString oligonucleotide probe
|
| Label protocol |
Labeled according to the manufacturer's protocol.
|
| |
|
| Hybridization protocol |
Hydridized according to the manufacturer's protocol.
|
| Scan protocol |
Scanned according to the manufacturer's protocol.
|
| Data processing |
We merged these samples in different panels into one dataset for subsequent data normalization. Data normalization similar to that described by the nCounter Advanced Analysis user manual (version 2.0, NanoString Technologies) was applied. Each count was transformed to a log2 scale and then normalized using positive control probes and housekeeping genes identified by geNorm algorithmt to reduce variations. We also calculated means of paired normal mice at weeks 3 and weeks 5 to 7 to scale mice (paired normal, tumor-bearing mice, and recurrence mice) at these two time points.
|
| |
|
| Submission date |
Jan 17, 2023 |
| Last update date |
Aug 18, 2024 |
| Contact name |
Chung-Hsing Chen |
| E-mail(s) |
[email protected]
|
| Organization name |
University of Taipei
|
| Department |
Department of Mathematics
|
| Street address |
No.1 Ai-Guo West Road
|
| City |
Taipei |
| ZIP/Postal code |
100234 |
| Country |
Taiwan |
| |
|
| Platform ID |
GPL25266 |
| Series (2) |
| GSE223028 |
Increase of blood CSF3R+ myeloid-derived suppressor cell predicts breast cancer recurrence [Myeloid] |
| GSE223029 |
Increase of blood CSF3R+ myeloid-derived suppressor cell predicts breast cancer recurrence |
|
