|
| Status |
Public on Apr 03, 2013 |
| Title |
KAP1 KO CD71+Ter119+ sorted cells_A8+ |
| Sample type |
RNA |
| |
|
| Source name |
KAP1 KO CD71+Ter119+ sorted cells
|
| Organism |
Mus musculus |
| Characteristics |
strain: mix strain
tissue: bone marrow
cell type: CD71+Ter119+ cells (sorted)
age: 8- to 12-wk-old
genotype/variation: KAP1 KO
|
| Treatment protocol |
no
|
| Growth protocol |
no
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Ter119+CD71+ mouse cells were sorted by flow cytometry RNA was extracted by TriZol, following manufacturer instructions
|
| Label |
biotin
|
| Label protocol |
100 ng of RNA was amplified and labeled using the Illumina TotalPrep RNA Amplification kit (Ambion
|
| |
|
| Hybridization protocol |
Hybridization on Mouse WG 6 v2 expression arrays (Illumina) was carried out according to the manufacturer’s instructions
|
| Scan protocol |
Scanning was carried out according to the manufacturer’s instructions
|
| Description |
A8+
sorted cells from bone marrow of 8- to 12-wk-old Kap-flox/stopfloxYFP
|
| Data processing |
Data were normalized and analyzed using Illumina Beadstudio 3.1.3 (background correction and quantile normalization).
Expression profiles of each sample were imported into GeneSpringGX 7.3.1 (Agilent Technologies, USA).
In addition to expression values, Illumina BeadStudio software computes a detection p-value. Based on this, each probe was assigned a detection flag (P (present): p < 0.045; M (Marginal): p between 0.050 and 0.045, A (Absent): p>0.05). Expression values below a defined threshold (i.e. 20) are set to the threshold in order to remove negative values after background correction. To identify dysregulated genes in KO mice, t-test and/or ANOVA and additional steps of filtering were carried out
|
| |
|
| Submission date |
Feb 05, 2013 |
| Last update date |
Apr 03, 2013 |
| Contact name |
Adamandia Kapopoulou |
| E-mail(s) |
adamandia.kapopoulou@epfl.ch
|
| Phone |
0041216930940
|
| Organization name |
EPFL
|
| Department |
Sciences de la Vie
|
| Lab |
Trono
|
| Street address |
Station 15
|
| City |
Lausanne |
| ZIP/Postal code |
1015 |
| Country |
Switzerland |
| |
|
| Platform ID |
GPL6887 |
| Series (2) |
| GSE44063 |
KRAB/KAP1-microRNA cascade regulates erythropoiesis through the stage-specific control of mitophagy [array] |
| GSE44065 |
KRAB/KAP1-microRNA cascade regulates erythropoiesis through the stage-specific control of mitophagy |
|
