|
| Status |
Public on Jun 17, 2013 |
| Title |
TIL064 at T0 |
| Sample type |
RNA |
| |
|
| Source name |
purified CD4+ T cells from breast cancer patient 064 at T0
|
| Organism |
Homo sapiens |
| Characteristics |
source tissue: breast tumor
cell type: purified CD4+ T cells
disease state: breast cancer
treatment: none
|
| Treatment protocol |
Cells were immediately processed for RNA extraction following isolation or were incubated without stimulation in X-VIVO 20 (Lonza) for 24h before RNA extraction.
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Trizol extraction of total RNA was performed according to the manufacturer's instructions.
|
| Label |
biotin
|
| Label protocol |
Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 100ng total RNA (3' IVT Express Kit Manual, 2009, Affymetrix).
|
| |
|
| Hybridization protocol |
Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Human Genome U133 Plus 2.0 Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
|
| Scan protocol |
GeneChips were scanned using the Affymetrix GeneChip Scanner.
|
| Description |
Gene expression data from purified CD4+ T cells from patient tumor at T0
CD4+ T cells were positively purified from patient tumors using Dynabeads CD4 (Invitrogen); Memory CD4+ cells were purified from a healthy donor (D6) by CD45RA depletion [Dynabeads M-450 Epoxy coupled to anti-CD45RA (#304102, Biolegend) followed by Dynabeads CD4 (Invitrogen) positive selection.
|
| Data processing |
The data (CEL files) were analyzed in R version 2.10.1 for RMA normalization.
|
| |
|
| Submission date |
Mar 23, 2012 |
| Last update date |
Sep 01, 2016 |
| Contact name |
Chunyan GU |
| E-mail(s) |
chunyan.gu@bordet.be
|
| Phone |
+32(0)25413711
|
| Organization name |
Free University of Brussels
|
| Department |
Medecine (Jules Bordet Institute)
|
| Lab |
Molecular Immunology
|
| Street address |
Bld de Waterloo 127
|
| City |
Brussels |
| ZIP/Postal code |
1000 |
| Country |
Belgium |
| |
|
| Platform ID |
GPL570 |
| Series (2) |
| GSE36767 |
Gene changes of CD4+ T cells infiltrating human breast cancer in the absence of tumor environment (Confirmation Set 24h) |
| GSE36769 |
CD4+ TIL in human breast cancer |
|
| Relations |
| Reanalyzed by |
GSE86362 |
