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Sample GSM300855 Query DataSets for GSM300855
Status Public on Dec 27, 2008
Title Renal Clear Cell Carcinoma_TB3940
Sample type RNA
 
Source name mRNA from Renal Clear Cell Carcinoma
Organism Homo sapiens
Characteristics VHL: Deficiant
HIF: HIF-2
Organism Part: Kidney
Disease State: Clear Cell Carcinoma
BioSourceType: Frozen Sample
Sex: Female
BioSource Provider: CHTN
Age: 81
Extracted molecule total RNA
Extraction protocol Trizol extraction of total RNA was performed according to the manufacturer's instructions, with additional purification with Qiagen Rneasy columns
Label biotin
Label protocol Nugen Ovation version 2 was used for amplification, labeling and fragmentation
 
Hybridization protocol 3.5 ug of cDNA was hybridized on the Affymetrix U133A V2.0 Chip following standard protocols.
Scan protocol GeneChips were scanned using the Affymetrix Genechip scanner 3000 7G
Description Gene expression data from Human RCC sample Sample collection: Frozen RCCs were obtained through the Collaborative Human Tissue Network Sample quality control: H&E staining was performed on each sample, and they were confirmed to have clear cell morphology
Data processing The data were extracted with Microarray Suite version 5.0 (MAS 5.0) and normalized with the GC-RMA algorithm in Array Assist Lite 3.4
 
Submission date Jun 26, 2008
Last update date Oct 21, 2011
Contact name Bradley Wubbenhorst
E-mail(s) bwubb@mail.med.upenn.edu
Phone 215-898-0248
Organization name University of Pennsylvannia
Street address 421 Curie Blvd
City Philadelphia
State/province PA
ZIP/Postal code 19104
Country USA
 
Platform ID GPL571
Series (1)
GSE11904 Gene expression analysis in primary human renal tumors, categorized by VHL genotype and HIF-alpha expression
Relations
Reanalyzed by GSE33093

Data table header descriptions
ID_REF
VALUE MAS5.0 signal intensity
ABS_CALL

Data table
ID_REF VALUE ABS_CALL
1007_s_at 21.04362488 P
1053_at 4.960290432 A
117_at 10.80077457 M
121_at 64.99484253 P
1255_g_at 4.924829006 A
1294_at 17.90282059 M
1316_at 7.607545376 P
1320_at 5.92432642 A
1405_i_at 5.450528145 P
1431_at 4.994443893 A
1438_at 4.922403812 A
1487_at 6.368700981 P
1494_f_at 4.931879044 A
1598_g_at 11.69213867 P
160020_at 4.92240715 A
1729_at 5.809232235 A
177_at 10.30636406 P
1773_at 5.375822067 A
179_at 5.131558418 A
1861_at 4.936403275 A

Total number of rows: 22277

Table truncated, full table size 540 Kbytes.




Supplementary file Size Download File type/resource
GSM300855.CEL.gz 1.7 Mb (ftp)(http) CEL
Processed data included within Sample table

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