|
| Status |
Public on May 05, 2022 |
| Title |
AML patient #19 treated with induction Induction chemotherapy + pomalidomide, CD4 cells |
| Sample type |
RNA |
| |
|
| Source name |
AML patient
|
| Organism |
Homo sapiens |
| Characteristics |
disease state: AML
tissue: peripheral blood (PB)
cell type: CD4+ T cells
treatment: Induction chemotherapy+pomalidomide
pairs: 3
|
| Treatment protocol |
PBMCs were first separated by T-cell negative selection with a custom made kit (Stem Cell Technologies) containing Abs against CD33, CD34, CD123, CD11c, and CD36. CD3+ CD4+ and CD3+CD8+ T cells were then sorted on a FACSAria II (BSL-2) (BD) to high purity (>98%)
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Total RNA was isolated using TRIzol (Life Techologies) and purified using the RNA Clean&Concentrator Kit (Zymo Research). Sample quality was checked using the Agilent Bioanalyzer Nano kit, and concentrations were verified using the Nanodrop spectrophotometer (Thermo Fisher Scientific). Only specimens with a high RNA integrity (RIN >9) were used for analyses.
|
| Label |
biotin
|
| Label protocol |
Total RNA was amplified with the NuGEN™ Ovation Pico WTA system and biotin labelled according manufacturer’s instructions (Affymetrix)
|
| |
|
| Hybridization protocol |
Hybridization with Human PrimeView expression arrays (Affymetrix) as per manufacturer’s instructions.
|
| Scan protocol |
Scanning was performed with M10 scanner using AGCC ScanCom software.
|
| Description |
Gene expression data from AML patient treated with induction Induction chemotherapytherapy plus pomalidomide of CD4+ T cells in the peripheral blood (PB) at early lymphocyte recovery (ELR)
CP_ELR_3_CD4
|
| Data processing |
R/Bioconductor package 'affy' and RMA for background processing (PM-MM model), quantile normalization, probe summarization
|
| |
|
| Submission date |
May 06, 2019 |
| Last update date |
May 05, 2022 |
| Contact name |
Hanna A Knaus |
| Organization name |
Johns Hopkins
|
| Department |
Oncology
|
| Lab |
Luznik Lab
|
| Street address |
1650 Orleans St
|
| City |
Baltimore |
| State/province |
Maryland |
| ZIP/Postal code |
21231 |
| Country |
USA |
| |
|
| Platform ID |
GPL16043 |
| Series (1) |
| GSE130753 |
Expression profiling of CD4+and CD8+ T cells in peripheral blood (PB) of AML patients who were treated with induction chemotherapy plus pomalidomide |
|
