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Status |
Public on Apr 30, 2023 |
Title |
MPP_b_BM |
Sample type |
RNA |
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Source name |
Bone marrow
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Organism |
Mus musculus |
Characteristics |
cell type: Bone marrow MPP cells developmental stage: Adult strain: C57Bl/6J
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Growth protocol |
Fetal liver cells were isolated from e13.5 embryos. Bone marrow was isolated from mice 3 to 12 months old.
|
Extracted molecule |
total RNA |
Extraction protocol |
RNeasy Micro Kit (Qiagen No. 74004).
|
Label |
biotin
|
Label protocol |
cRNA was prepared according to the standard Affymetrix protocol from 2 ng total RNA (GeneChIP Pico Reagent Kit, Affymetrix). 10 cycles were used for Pre IVT-PCR.
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Hybridization protocol |
Cartridge Array Hybridization was performed according to standard Affymetrix protocols (Affymetrix Pico Kit User Guide (P/N 703262) for Array Plate Hybridization).
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Scan protocol |
Arrays were scanned using the Affymetrix GCS3000 Scanner (Software GCOS 1.2).
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Description |
Heckl3041 Gene expression data from BM transplanted mice transduced with +sgLuc
|
Data processing |
The data were analyzed using R 3.5.01 and Bioconductor2. Raw files (.cel) were read in using the function “read.celfiles” from the R package “oligo”. Quality control was performed by inspection of the RLE (Relative Log Expression ) plots and NUSE (normalized unscaled standard error) plots after fitting a Probe Level Model to the raw intensity data by using the function “fitProbeLevelModel” from the package “oligo”. The Raw data was background corrected, quantile-normalized, and log2-transformed using the function “rma” from the ”oligo” package.
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Submission date |
Apr 22, 2021 |
Last update date |
Apr 30, 2023 |
Contact name |
Dorit Borchert |
E-mail(s) |
Borchert.Dorit@mh-hannover.de
|
Organization name |
Hannover Medical School
|
Department |
Pediatric Hematology and Oncology
|
Street address |
Carl-Neuberg-Str. 1
|
City |
Hannover |
ZIP/Postal code |
30625 |
Country |
Germany |
|
|
Platform ID |
GPL23038 |
Series (2) |
GSE173158 |
Expression data of freshly isolated and sorted HSC populations from murine fetal liver or adult bone marrow [array] |
GSE173497 |
Oncofetal gene reactivation drives EZH2-mutant myeloid leukemia pathogenesis |
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