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Sample GSM328699 Query DataSets for GSM328699
Status Public on Oct 11, 2008
Title Mouse PUER exon 24h-3
Sample type RNA
 
Source name PUER cells 24h after induction of PU.1 expression with 100nM OHT
Organism Mus musculus
Characteristics PU.1 -/- deficient myeloid progenitors with PU-ER fusion protein
Treatment protocol To activate the PU.1-ER fusion protein, PUER cells were centrifuged and resuspended in medium containing 100nM tamoxifen [4-hydroxytamoxifen (OHT)]
Growth protocol PUER cells were cultivated in IMDM supplemented with penicillin/streptomycin (10,000 U/ml), glutamin (200 mM), ß-ME (50 M), mouse IL-3 (5 ng/ml, Biosource, Camarillo, CA, USA), puromycin (1 g/ml), and 10% FCS.
Extracted molecule total RNA
Extraction protocol Total RNA from the PUER cells was extracted according to the manufacter's instructions using the RNeasy Mini Kit (Qiagen, Valencia, CA, USA)
Label Biotin
Label protocol Biotinylated sense-strand DNA for hybridization to Affymetrix exon arrays was prepared with the Affymetrix GeneChip whole transcript sense target labeling assay, using the standard 1,5 μg total RNA method according to the manufacturer’s protocols (Affymetrix, GeneChip WT terminal labelling kit 900671). Ribosomal RNA reduction was performed using the RiboMinus Human/Mouse Transcriptome Isolation Kit (Invitrogen, K1550-01).
 
Hybridization protocol The labeling assay yielded labeled single-stranded DNA that was fragmented and hybridized to Affymetrix Mouse Exon 1.0 ST Arrays (exon arrays) according to manufacturer’s protocols at the KFB Regensburg
Scan protocol GeneChips were scanned using the GeneChip Scanner 3000 Blank7G (Affymetrix).
Description Gene expression data from PUER cells 24h after induction of PU.1 expression with 100nM OHT
Data processing The data were analyzed with Affymetrix Expression console and Genomatix ChipInspector using Affymetrix default analysis settings and global scaling as normalization method.
MoEx-1_0-st-v1.r2.dt1.mm8.core.mps
 
Submission date Oct 08, 2008
Last update date Oct 10, 2008
Contact name Thomas Langmann
E-mail(s) thomas.langmann@klinik.uni-regensburg.de
Phone +49-941-944-5423
Fax +49-941-944-5402
Organization name Institute of Human Genetics
Department University of Regensburg
Street address Franz-Josef-Strauss-Allee 11
City Regensburg
ZIP/Postal code 93042
Country Germany
 
Platform ID GPL6096
Series (1)
GSE13125 Identification of PU.1 target genes by expression profiling of PUER cells

Data table header descriptions
ID_REF
VALUE RMA log signal intensity

Data table
ID_REF VALUE
6848511 10.22798
6864895 8.281072
6766590 1.748043
6914045 2.17437
6963197 4.546102
6766588 2.187873
6995964 7.743551
6766587 2.274472
6815739 3.641559
6766586 7.143692
7012346 3.877243
6766585 5.272963
6848505 5.559464
6766584 3.072886
6848504 6.86882
6979576 3.912058
6995960 3.902628
6766583 3.416553
6963191 4.869182
6979575 4.731891

Total number of rows: 23238

Table truncated, full table size 383 Kbytes.




Supplementary file Size Download File type/resource
GSM328699.CEL.gz 21.2 Mb (ftp)(http) CEL
Processed data included within Sample table

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