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Sample GSM1104069 Query DataSets for GSM1104069
Status Public on May 27, 2013
Title proB-cell line_ERt2_OHT
Sample type RNA
 
Source name cell line BMiFLT3(15-3)
Organism Mus musculus
Characteristics cell line: BMiFLT3(15-3)
cell type: proB cells from a murine BCP-ALL
genetic modification: cell transduced with ERt2
treatment: OHT
Treatment protocol 24 hours before sorting the cells were either treated with 0.2 µM OHT to ensure Runx1-ERt2 translocation into the nucleus or treated with the appropriate amount of ethanol as a control. For FACS-sort cells were stained with an antibody against B220. B220 positive cells were isolated and cell pellets were frozen at -80 °C until further processing steps were performed.
Growth protocol Cells were routinely grown in α-MEM with 10% FCS, glutamine and sodium pyruvate.
Extracted molecule total RNA
Extraction protocol RNA was extracted (NucleoSpin® RNA II; Agilent Technologies), according to the manufacturer's instructions by Miltenyi Biotec.
Label Cy3
Label protocol Cy3-labeled cRNA was prepared using the Agilent Low Input Quick Amp Labeling Kit (Agilent Technologies) following manufacturer´s protocol. The amount of cRNA and the dye-incorporation rate were checked by using the ND-1000 Spectrophotometer (NanoDrop Technologies) by Miltenyi Biotec.
 
Hybridization protocol Hybridization was peformed according to manufacturer´s protocol using the Agilent Gene Expression Hybridization Kit (Agilent Technologies). 1.65 µg Cy3-labeled fragmented cRNA was hybridized overnight (17 hrs., 65 °C) to Agilent Whole Mouse Genome Oligo Microarrays 4x44K by Miltenyi Biotec.
Scan protocol Fluorescence signals were scanned using the Agilent´s Microarray Scanner System (Agilent Technologies). The Agilent Feature Extraction Software (EFS) was used to read out and process the microarray image files.
Data processing The images were analyzed using the Agilent G2567AA Feature Extraction Software v.9.1.
 
Submission date Mar 22, 2013
Last update date May 28, 2013
Contact name Neele Margarete Kriebitzsch
E-mail(s) neele.kriebitzsch@hpi.uni-hamburg.de
Organization name Heinrich-Pette-Institute, Leibniz Institute for Experimental Virology
Lab Molecular Pathology
Street address Martinistraße 52
City Hamburg
ZIP/Postal code 20251
Country Germany
 
Platform ID GPL11202
Series (2)
GSE45424 Gene expression analysis to identify Runx1 target genes in B-cell progenitors
GSE45425 Runx1 targets in early B-cell progenitors

Data table header descriptions
ID_REF
VALUE Normalized signal intensity

Data table
ID_REF VALUE
A_51_P100034 54.439594
A_51_P100174 77.481099
A_51_P100208 0.12685
A_51_P100289 45.768427
A_51_P100298 0.105505
A_51_P100309 0.095825
A_51_P100327 29.533452
A_51_P100347 1.775479
A_51_P100519 0.10841
A_51_P100537 0.118495
A_51_P100573 10.760252
A_51_P100624 0.142662
A_51_P100625 1.435408
A_51_P100768 1.339293
A_51_P100776 2.919545
A_51_P100787 98.393132
A_51_P100828 101.972636
A_51_P100852 4.840867
A_51_P100991 0.588091
A_51_P100997 7.513043

Total number of rows: 39429

Table truncated, full table size 884 Kbytes.




Supplementary file Size Download File type/resource
GSM1104069_252665512013_S01_GE1_105_Jan09_1_4.txt.gz 8.9 Mb (ftp)(http) TXT
Processed data included within Sample table

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