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Sample GSM139031 Query DataSets for GSM139031
Status Public on Jul 01, 2008
Title A2lox.mesp1 (day 6 + DKK1)
Sample type RNA
 
Source name A2lox.mesp1 ES cells
Organism Mus musculus
Characteristics Genotype: Mesp1 transgenic ES cells
Treatment protocol ES cells were differentiated in low density suspension culture. Recombinant DKK1 at 150 ng/mL was added from day 0-4.
Growth protocol For differentiation, ES cells were plated in suspension in bacterial petri dishes at 1.5 x 10e4 cells/mL in serum-containing medium (SCM: IMDM with 10% FCS, NEAA, L-glutamine, NaPyruvate, Pen/Strep, and 2-mercaptoethanol) ), and supplemented where indicated with Dkk1 or doxycycline.
Extracted molecule total RNA
Extraction protocol Total RNA was purified using Rneasy mini kits (Qiagen) per manufacturer's instructions.
Label biotin
Label protocol Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 5 microg total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
 
Hybridization protocol Following fragmentation, 10 microg of cRNA were hybridized for 16 hr at 45C on GeneChip Mouse Genome 430 2.0 Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
Description Gene expression data from ES cells differentiated in serum containing medium supplemented with DKK1 from days 0-4.
Data processing The data were normalized and expression values modeled using dChip according to default settings (www.dchip.org).
 
Submission date Oct 05, 2006
Last update date Aug 28, 2018
Contact name Coleman Lindsley
E-mail(s) lindsley@wustl.edu
Organization name Washington University School of Medicine
Department Pathology and Immunology
Lab Dr. Kenneth M. Murphy
Street address BOX 8118, 660 S. Euclid Ave.
City Saint Louis
State/province MO
ZIP/Postal code 63110
Country USA
 
Platform ID GPL1261
Series (1)
GSE5976 Mesp1-induced gene expression changes
Relations
Reanalyzed by GSE119085

Data table header descriptions
ID_REF
VALUE dChip calculated signal intensity

Data table
ID_REF VALUE
AFFX-BioB-5_at 6.966
AFFX-BioB-M_at 2.122
AFFX-BioB-3_at 9.005
AFFX-BioC-5_at 6.316
AFFX-BioC-3_at 3.616
AFFX-BioDn-5_at 2.097
AFFX-BioDn-3_at 11.146
AFFX-CreX-5_at 4.305
AFFX-CreX-3_at 16.609
AFFX-DapX-5_at 586.115
AFFX-DapX-M_at 1102.203
AFFX-DapX-3_at 1238.583
AFFX-LysX-5_at 56.322
AFFX-LysX-M_at 93.731
AFFX-LysX-3_at 242.661
AFFX-PheX-5_at 110.094
AFFX-PheX-M_at 171.62
AFFX-PheX-3_at 136.352
AFFX-ThrX-5_at 151.763
AFFX-ThrX-M_at 186.72

Total number of rows: 45101

Table truncated, full table size 809 Kbytes.




Supplementary file Size Download File type/resource
GSM139031.CEL.gz 5.9 Mb (ftp)(http) CEL

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