|
Status |
Public on Jan 01, 2013 |
Title |
Primary Cell Line HOB |
Sample type |
RNA |
|
|
Source name |
Clonetics
|
Organism |
Homo sapiens |
Characteristics |
cell type: primary cells sarcoma and primary cell type: undifferentiated osteoblasts grown in proliferation medium other: Full details are available at the Clonetics website
|
Treatment protocol |
Undifferentiated human osteoblasts (HOB) were grown to 60% confluency in proliferation medium according to the manufacturer's (Clonetics) instructions. Differentiated HOB were grown for 21 days in differentiation mediua (Clonetics) and test samples were stained for Alakine Phosphatase, Alizarin S and Von Kossa staining to determine levels of differentiation. MSC were grown in adipogenic medium for 7 days.
|
Growth protocol |
Primary cells and cell lines were grown accrding to standard protocols and used at passage 4-7.
|
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 protocol from 10 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
|
|
|
Hybridization protocol |
Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45C on Hgu133av2 GeneChips. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
|
Scan protocol |
GeneChips were scanned using the Affymetrix Scanner
|
Description |
human sarcoma and primary mesenchymal cell lines
|
Data processing |
For pre-processing of raw data (background correction, normalisation, and probeset summarisation) we used the Bioconductor affy package for the R prgramming language specifically the 'rma' algorithm
|
|
|
Submission date |
Jul 11, 2012 |
Last update date |
Jan 01, 2013 |
Contact name |
Stephen Henderson |
E-mail(s) |
s.henderson@ucl.ac.uk
|
Phone |
02076796827
|
Fax |
02076796851
|
Organization name |
UCL
|
Department |
Cancer Institute
|
Lab |
Viral Oncology
|
Street address |
Paul O'Gorman Building, Huntley Street
|
City |
London |
ZIP/Postal code |
WC1E 6BT |
Country |
United Kingdom |
|
|
Platform ID |
GPL96 |
Series (1) |
GSE39262 |
Human sarcoma cell lines and untransformed cells |
|