|
| Status |
Public on Jun 25, 2013 |
| Title |
Lsd1fl/fl biological replicate #2 [LT-HSC] |
| Sample type |
RNA |
| |
|
| Source name |
CD150+ CD48- lin- c-Kit+ Sca-1+ LT-HSCs
|
| Organism |
Mus musculus |
| Characteristics |
strain: C57BL/6/SV129
tissue: adult bone marrow
gender: male
genotype/variation: Lsd1fl/fl
|
| Treatment protocol |
Both, Lsd1fl/fl and Lsd1fl/fl Mx1Cre mice were injected with three doses of high molecular weight p(I:C) (Invivogen, San Diego, USA) at a concentration of 12.5µg/g body weight.
|
| Growth protocol |
Freshly isolated primary bone marrow cells, the cells have NOT been cultured in vitro.
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Total RNA was extracted with the RNeasy Micro Kit (QIAGEN), treated with DNaseI, reverse transcribed. RNA extracted from CD150+ CD48- lin- c-Kit+ Sca-1+ cells was amplified with the Ovation Pico WTA RNA Amplification System 2 (NuGEN Technologies). Single-stranded cDNA amplification products were purified using QIAquick PCR Purification Kit (QIAGEN) and labeled with the FL-Ovation cDNA Biotin Module V2 (NuGEN).
|
| Label |
biotin
|
| Label protocol |
Biotinylated cRNA were prepared according to the standard Affymetrix protocol.
|
| |
|
| Hybridization protocol |
Standard Affymetrix protocol.
|
| Scan protocol |
Standard Affymetrix protocol.
|
| Description |
FACS-purified primary CD150+ CD48- lin- c-Kit+ Sca-1+ LT-HSCs
|
| Data processing |
We RMA-normalized the arrays using the expression file creator package from GenePattern (Broad Institute, Boston, USA). The RMA-normalized *.gct files were then analyzed by the comparative marker selection package from GenePattern (Broad Institute, Boston, USA).
|
| |
|
| Submission date |
Aug 22, 2012 |
| Last update date |
Jun 25, 2013 |
| Contact name |
Marc A. Kerenyi |
| Organization name |
Boston Children's Hospital and Dana Farber Cancer Institute
|
| Department |
Hematology / Oncology
|
| Lab |
Stuart Orkin Laboratory
|
| Street address |
1 Blackfan Street - Karp Research Building
|
| City |
Boston |
| State/province |
Massachusetts |
| ZIP/Postal code |
02115 |
| Country |
USA |
| |
|
| Platform ID |
GPL1261 |
| Series (2) |
| GSE40284 |
Gene expression data of Lsd1fl/fl and Lsd1fl/fl Mx1Cre CD150+ CD48- lin- c-Kit+ Sca-1+ LT-HSCs |
| GSE40605 |
Histone Demethylase Lsd1 Represses Hematopoietic Stem and Progenitor Cell Signatures During Blood Cell Maturation. |
|
