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Sample GSM959010 Query DataSets for GSM959010
Status Public on Jan 01, 2013
Title Sarcoma Cell Line RH30
Sample type RNA
 
Source name DSMZ
Organism Homo sapiens
Characteristics cell type: tumour cell line
sarcoma and primary cell type: alveolar rhabdomyosarcoma
other: Full details are available at the DSMZ 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 Sep 01, 2016
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
Relations
Reanalyzed by GSE86363

Data table header descriptions
ID_REF
VALUE rma log2 expression summary

Data table
ID_REF VALUE
215445_x_at 4.870558903
219574_at 5.636946669
220781_at 5.164023179
210075_at 6.93796546
200778_s_at 11.54271678
213256_at 9.418686769
210348_at 6.344773122
210657_s_at 5.987917638
218582_at 9.583268724
209767_s_at 5.733833334
209768_s_at 6.510935362
201736_s_at 9.113347642
201737_s_at 6.828679767
215512_at 5.290031052
215902_at 5.352668489
215908_at 6.050369436
212413_at 6.792025805
212414_s_at 9.003490646
212415_at 6.966005832
213666_at 7.592790142

Total number of rows: 22283

Table truncated, full table size 496 Kbytes.




Supplementary file Size Download File type/resource
GSM959010_DG_RH30_150503.CEL.gz 3.7 Mb (ftp)(http) CEL
Processed data included within Sample table

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