|
| Status |
Public on Oct 30, 2008 |
| Title |
PHA stimulated, Tempus, replicate Y (Blood_PHA25_ABI_Y) |
| Sample type |
RNA |
| |
|
| Source name |
Peripheral blood
|
| Organism |
Homo sapiens |
| Characteristics |
n/a
|
| Treatment protocol |
Whole blood from 7 healthy individuals was collected using Li Heparin tubes, and was incubated for 3 hours at room temperature with or without addition of 25 ug/mL of PHA. After incubation, samples were subsequently transferred to either Tempus or PAXgene tubes.
|
| Extracted molecule |
total RNA |
| Extraction protocol |
RNA was extracted at the ITN Central Nucleic Acid Isolation Core facility, Pittsburgh, PA according to the ITN modified method for Tempus. Whole blood samples collected into Tempus vacuette were extracted using ABI Prism 6100 Nucleic Acid PrepStation and using Tempus extraction reagents. The PAXgene whole blood sample were processed using the PAXgene Blood RNA Kit based on the Qiagen method for column purification of nucleic acid.
|
| Label |
biotin
|
| Label protocol |
Biotinylated cRNA were prepared according to the standard Affymetrix protocol. cRNA target amplificationwas performed using the Affymetrix In-vitro Transcription (IVT) Kit followed by a Globin Reduction step.
|
| |
|
| Hybridization protocol |
Hybridization on Affymetrix HG-U133 2.0 plus array according to manufacturer's instructions.
|
| Scan protocol |
GeneChips were scanned using the Hewlett-Packard GeneArray Scanner G2500A.
|
| Description |
PHA stimulated, Tempus RNA extraction method, replicate Y
|
| Data processing |
The data normalizaion was performed using Bioconductor package THREESTEP(background.method="MASIM", noemalize.method="scaling", summary.method="tukey.biweight").
|
| |
|
| Submission date |
Sep 09, 2008 |
| Last update date |
Aug 28, 2018 |
| Contact name |
Zhong Gao |
| Organization name |
Johns Hopkins University
|
| Street address |
Ross 844 720 Rutland Avenue
|
| City |
Baltimore |
| State/province |
MD |
| ZIP/Postal code |
21205 |
| Country |
USA |
| |
|
| Platform ID |
GPL570 |
| Series (2) |
| GSE12709 |
Differential gene expression profiles are dependent upon method of peripheral blood RNA isolation (PHA) |
| GSE12711 |
Differential gene expression profiles are dependent upon method of peripheral blood RNA isolation |
|
| Relations |
| Reanalyzed by |
GSE119087 |
