NCBI Logo
GEO Logo
   NCBI > GEO > Accession DisplayHelp Not logged in | LoginHelp
GEO help: Mouse over screen elements for information.
          Go
Sample GSM351111 Query DataSets for GSM351111
Status Public on Dec 15, 2008
Title U2OS Dex 39th hour
Sample type RNA
 
Source name U2OS osteosarcoma
Organism Homo sapiens
Characteristics synchronized with dexamethasone
Treatment protocol Cells were synchronized with Dexamethasone 24 hours before samples were collected.
Growth protocol U2OS cells (ATCC) were grown to confluence in DMEM supplimented with 10% FCS and P/S/G on 35mm dishes.
Extracted molecule total RNA
Extraction protocol Cells were washed briefly with 1X PBS. 1 mL Trizol (Invitrogen) was used to homogenize cells, and samples were frozen at -80 until total RNA was purified.
Label biotin
Label protocol Second-strand cDNA synthesis was followed by in vitro transcription for linear amplification of each transcript and incorporation of biotinylated CTP and UTP.
 
Hybridization protocol The cRNA products were fragmented to 200 nucleotides or less, heated at 99 degrees C for 5 min and hybridized for 16 h at 45 degrees C. The microarrays were then washed at low (6X SSPE) and high (100mM MES, 0.1M NaCl) stringency and stained with streptavidin-phycoerythrin. Fluorescence was amplified by adding biotinylated anti-streptavidin and an additional aliquot of streptavidin-phycoerythrin stain.
Scan protocol A confocal scanner was used to collect fluorescence signal at 3um resolution after excitation at 570 nm. The average signal from two sequential scans was calculated for each microarray feature.
Description n/a
Data processing signal calculated by RMA in Affymetrix Expression Console
 
Submission date Dec 15, 2008
Last update date Dec 15, 2008
Contact name Michael Hughes
E-mail(s) [email protected]
Organization name UPenn
Street address 421 Curie Bvd, Brb 835
City Philadelphia
State/province PA
ZIP/Postal code 19104
Country USA
 
Platform ID GPL6244
Series (1)
GSE13949 High temporal resolution profiling of U2OS fibroblasts

Data table header descriptions
ID_REF
VALUE signal calculated by RMA in Affymetrix Expression Console

Data table
ID_REF VALUE
7892501 4.320448247
7892502 11.06603894
7892503 6.723884767
7892504 429.5808882
7892505 20.47026679
7892506 7.542715444
7892507 9.895118606
7892508 14.50789194
7892509 3051.197814
7892510 22.29045252
7892511 5.983941204
7892512 197.9812507
7892513 7.717143859
7892514 451.746308
7892515 577.5383748
7892516 36.97061147
7892517 18.51522274
7892518 8.88309857
7892519 18.6865198
7892520 597.0036741

Total number of rows: 33297

Table truncated, full table size 646 Kbytes.




Supplementary file Size Download File type/resource
GSM351111.CEL.gz 4.0 Mb (ftp)(http) CEL
GSM351111.chp.gz 253.4 Kb (ftp)(http) CHP
Processed data included within Sample table
Processed data provided as supplementary file

| NLM | NIH | GEO Help | Disclaimer | Accessibility |
NCBI Home NCBI Search NCBI SiteMap