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Sample GSM139027 Query DataSets for GSM139027
Status Public on Jul 01, 2008
Title A2lox.mesp1 (day 4 + 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 8.346
AFFX-BioB-M_at 1.404
AFFX-BioB-3_at 11.12
AFFX-BioC-5_at 8.952
AFFX-BioC-3_at 1
AFFX-BioDn-5_at 3.061
AFFX-BioDn-3_at 7.515
AFFX-CreX-5_at 2.627
AFFX-CreX-3_at 22.371
AFFX-DapX-5_at 566.645
AFFX-DapX-M_at 1057.343
AFFX-DapX-3_at 1284.882
AFFX-LysX-5_at 58.187
AFFX-LysX-M_at 76.218
AFFX-LysX-3_at 234.453
AFFX-PheX-5_at 103.249
AFFX-PheX-M_at 172.642
AFFX-PheX-3_at 131.084
AFFX-ThrX-5_at 146.309
AFFX-ThrX-M_at 206.015

Total number of rows: 45101

Table truncated, full table size 810 Kbytes.




Supplementary file Size Download File type/resource
GSM139027.CEL.gz 5.7 Mb (ftp)(http) CEL

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