GEO Logo
   NCBI > GEO > Accession DisplayHelp Not logged in | LoginHelp
GEO help: Mouse over screen elements for information.
Sample GSM1126507 Query DataSets for GSM1126507
Status Public on Jun 14, 2013
Title shRNA1_+DEX_rep1
Sample type RNA
Source name Erythroid cells
Organism Mus musculus
Characteristics strain: C57BL/6
age: E14.5
tissue: fetal liver
cell type: early erythroid progenitors
infection: virus encoding shRNA 1 targeting RBP
culture conditions: +DEX
Treatment protocol Early erythroid progenitors were infected with control virus or viruses encoding RBP shRNAs, and cultured in medium for 3 days before mRNA extraction.
Growth protocol Early erythroid progenitors were enriched from mouse E14.5 fetal liver. The first step includes a negative selection for erythroid progenitors by magnetic depleting of mature blood cells (lineage positive cells), early multipotent GEMM colony forming cells (Sca-1 positive cells), and myeloid colony-forming cells (CFU-G/M/Mk) (CD16/32 positive, CD41 positive, or CD34 positive cells). The second step includes a FACS based positive selection of early erythroid progenitor process (c-kit positive and CD71 10%low cells).
Extracted molecule total RNA
Extraction protocol RNAs were extracted by using Qiagen RNA extraction kit following the manufacturer's instruction.
Label Cy3
Label protocol Label was performed following one-color microarray-based gene expression analysis low input quick amp labeling protocol (Agilent Technologies 'one-color microarray-based gene expression analysis').
Hybridization protocol Agilent expression arrays were hybridized according to manufacturer instructions and scanned using an Agilent DNA microarray scanner.
Scan protocol Arrays were scanned using an Agilent DNA microarray scanner with SureScan high-resolution technology.
Description mRNA expression in day3 cultured cells (+DEX) infected with virus encoding shRNA 1 targeting RBP repeat 1
Data processing Data was extracted from the array images using Agilent’s Feature Extraction software, quantile normalized using limma from Bioconductor in R, and processed.
Submission date Apr 19, 2013
Last update date Jun 14, 2013
Contact name Lingbo Zhang
Organization name Whitehead Institute for Biomedical Research and MIT Department of Biology
Street address Nine Cambridge Center
City Cambridge
ZIP/Postal code 02142
Country USA
Platform ID GPL10333
Series (2)
GSE46215 Identification of genes regulated by glucocorticoids and an RNA binding protein (RBP) in early erythroid progenitor using microarray experiment
GSE46216 Role of glucocorticoids and an RNA binding protein (RBP) in early erythroid progenitors

Data table header descriptions
VALUE Normalized log2 signal intensity

Data table
1 13.60486809
2 5.355351096
3 4.908392621
4 4.930737338
5 5.098032083
6 5.461479447
7 5.124121312
8 5.057991723
9 5.144658243
10 5.027905997
11 5.098032083
12 6.935901682
13 5.403012024
14 11.37152143
15 6.667998536
16 11.91746532
17 9.965333372
18 5.403012024
19 5.481799432
20 5.636624621

Total number of rows: 44397

Table truncated, full table size 765 Kbytes.

Supplementary file Size Download File type/resource
GSM1126507_252665512877_201209270957_S01_GE1-v5_10_Apr08_1_2.txt.gz 8.9 Mb (ftp)(http) TXT
Processed data included within Sample table

| NLM | NIH | GEO Help | Disclaimer | Accessibility |
NCBI Home NCBI Search NCBI SiteMap