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Sample GSM949298 Query DataSets for GSM949298
Status Public on Jun 13, 2013
Title MN1 full construct
Sample type RNA
 
Source name Common Myeloid Progenitor (CMP) cells transduced with full-length MN1 expression vector
Organism Mus musculus
Characteristics strain: C57Bl/6
Treatment protocol Linage negative mouse bone marrow cells were cultured for a total of 5 days (including the transduction period) in growth medium which contains IMDM+glutamine (2mM)+penicillin/streptomycin (each 100 U/mL)+10% heat inactivated fetal bovine serum+50ng/ml mouse SCF+ 10ng/ml mouse IL3+ 10ng/ml mouse IL6.
Growth protocol MACS-sorted lineage negative mouse bone marrow cells were transduced with retroviral vectors that expressed full-length or truncated forms of MN1 protein. Cells were cultured total 5 days (including the transduction period), and CMP+/GFP+ cells were FACS-sorted 2 days after the first transduction.
Extracted molecule total RNA
Extraction protocol Trizol extraction of total RNA was performed according to the manufacturer's instructions.
Label biotin
Label protocol Biotinylated cRNA were prepared according to the standard Affymetrix eukaryote two-cycle expression protocol from 100 ng total RNA (Expression Analysis Technical Manual, 2004-2009, Affymetrix).
 
Hybridization protocol Following fragmentation, 6 ug of cRNA were hybridized for 16 hr at 45C on a HT MG-430 PM Genome Array. GeneChip plate arrays were washed and stained in the Affymetrix GeneTitan system.
Scan protocol Gene array plates were scanned using the Affymetrix GeneTitan system.
Data processing The data were analyzed with the Affymetrix Expression Console software v1.1. RMA normalization and summarization was performed using the default settings in the software.
 
Submission date Jun 17, 2012
Last update date Jun 13, 2013
Contact name Geoffrey Neale
E-mail(s) geoffrey.neale@stjude.org
Organization name St Jude Childrens Research Hospital
Department Hartwell Center
Street address 262 Danny Thomas Place
City Memphis
State/province TN
ZIP/Postal code 38105
Country USA
 
Platform ID GPL11180
Series (1)
GSE38767 Gene expression profiles in mouse common myeloid progenitor (CMP) and leukemia cells expressing full-length MN1 or truncated versions of MN1 protein

Data table header descriptions
ID_REF
VALUE log2 RMA

Data table
ID_REF VALUE
AFFX-BioB-5_at 9.42492
AFFX-BioB-M_at 10.1881
AFFX-BioB-3_at 10.3458
AFFX-BioC-5_at 10.8591
AFFX-BioC-3_at 10.7512
AFFX-BioDn-5_at 12.471
AFFX-BioDn-3_at 13.1926
AFFX-CreX-5_at 13.6945
AFFX-CreX-3_at 13.7685
AFFX-DapX-5_at 11.8646
AFFX-DapX-M_at 13.4327
AFFX-DapX-3_at 14.1113
AFFX-LysX-5_at 10.9317
AFFX-LysX-M_at 12.8414
AFFX-LysX-3_at 13.6213
AFFX-PheX-5_at 11.3693
AFFX-PheX-M_at 13.0404
AFFX-PheX-3_at 13.5513
AFFX-ThrX-5_at 10.7689
AFFX-ThrX-M_at 12.6095

Total number of rows: 45141

Table truncated, full table size 983 Kbytes.




Supplementary file Size Download File type/resource
GSM949298_akk006-htmg430pm.CEL.gz 2.0 Mb (ftp)(http) CEL
GSM949298_akk006-htmg430pm.rma.chp.gz 307.6 Kb (ftp)(http) CHP
Processed data included within Sample table
Processed data provided as supplementary file

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