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Sample GSM1583301 Query DataSets for GSM1583301
Status Public on May 13, 2015
Title EML1 infected with the empty pWPI lentiviral vector treated with IL7 and FLT3L for 5 days- rep 1
Sample type RNA
 
Source name EML1 hematopoietic progenitor cell line
Organism Mus musculus
Characteristics cell line: EML1
treatment: empty pWPI lentiviral vector treated with IL7 and FLT3L for 5 days
Growth protocol EML1 cells were grown in IMDM (Iscove Modified Dulbecco’s Medium) supplemented with 20% heat-inactivated horse serum and 15% BHK/MKL cell-conditioned medium. For B-cell differentiation, OP9 stromal cells were plated in 6-well plates in Alpha Minimum Essential Medium (α-MEM) with 20% of fetal bovine serum. When they reached confluency, 50 000 EML1 cells were plated on top of the stromal cells in their specific culture medium plus supplements (IL7 10 ng/ml; FLT3L 80 ng/ml; β-mercaptoethanol, 50 μM).
Extracted molecule total RNA
Extraction protocol Total RNA was extracted using TRIzol Reagent (Gibco), followed by clean up on RNeasy mini/midi columns (RNeasy Mini/Midi Kit, Qiagen).
Label biotin
Label protocol Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 5 ug total RNA The size and the accuracy of quantitation of targets were checked by agarose gel electrophoresis of 2ug aliquots, prior to and after fragmentation. After fragmentation, targets were diluted in hybridisation buffer at a concentration of 150ug/ml.
 
Hybridization protocol Following fragmentation, 12.5 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Mouse Gene 1.0 ST Arrays. GeneChips were washed and stained in the Affymetrix Fluidics Station.
Scan protocol Images were scanned using an Affymetrix GeneArray Scanner, using default parameters.
Description EML1 cell line: Bone marrow cells of male BDF1 mice infected with the retroviral vector LRARalpha403SN. They can be induced with IL-7 and bone marrow stromal cells to express characteristics of pre-pro-B lymphocytes.
Data processing standard Affymetrix protocol
 
Submission date Jan 13, 2015
Last update date May 14, 2015
Contact name Myriam Alcalay
E-mail(s) myriam.alcalay@ieo.eu
Organization name European Institute of Oncology
Department Experimental Oncology
Lab Functional Genomics
Street address Via Adamello 16
City Milan
ZIP/Postal code 20139
Country Italy
 
Platform ID GPL11533
Series (1)
GSE64919 Genes regulated in EML1 cells expressing the TEL-AML1 oncogene after 5 and 7 days of treatment with IL7 and FLT3 ligand.

Data table header descriptions
ID_REF
VALUE normalized signal

Data table
ID_REF VALUE
10605884 61.5532
10411593 71.7229
10351644 567.69
10461553 49.4392
10436128 45.4111
10411595 332.344
10485979 38.6755
10545940 505.907
10521515 57.7422
10486081 53.9129
10595900 233.606
10485982 52.7935
10606001 427.53
10461558 48.5944
10411609 358.106
10595892 46.525
10571467 48.4972
10411611 229.952
10595895 63.8702
10546047 56.9756

Total number of rows: 35556

Table truncated, full table size 586 Kbytes.




Supplementary file Size Download File type/resource
GSM1583301_EML-ev_B5_A.cel.gz 4.2 Mb (ftp)(http) CEL
Processed data included within Sample table

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