NCBI Logo
GEO Logo
   NCBI > GEO > Accession DisplayHelp Not logged in | LoginHelp
GEO help: Mouse over screen elements for information.
          Go
Sample GSM238572 Query DataSets for GSM238572
Status Public on Jan 13, 2008
Title NA11992 growth 2.
Sample type RNA
 
Source name CEU NA11992 Biological Growth 2
Organism Homo sapiens
Characteristics Gender: male, Cell-type: lymphoblasts
GM11992_02
Coriell cell line repository identifier:GM11992
Biomaterial provider Coriell Cell Repositories
http://ccr.coriell.org/Sections/Search/Search.aspx?PgId=165&q=GM11992
Treatment protocol Cells were harvested at a density of 0.8-1.1 x 10e6 cells/mL. Cells were then resuspended and lysed in TRIzol reagent
Growth protocol Cells were grown at 37°C and 5% CO2 in RPMI 1640 medium supplemented with 15% heat-inactivated fetal bovine serum, 2 mM L-glutamine and penicillin/streptomycin
Extracted molecule total RNA
Extraction protocol Trizol extraction of total RNA was performed according to the manufacturer's instructions.
Label biotin
Label protocol Biotinlabelled target for the microarray experiment were prepared using 1 ug of total RNA. The RNA was subjected to a rRNA removal procedure with the RiboMinus Human/Mouse Transcriptome Isolation Kit (Invitrogen) and cDNA was synthesized using the GeneChip® WT (Whole Transcript) Sense Target Labeling and Control Reagents kit as described by the manufacturer (Affymetrix).
 
Hybridization protocol Following fragmentation, 5 ug of cRNA were hybridized for 16-20 hr at 45C on GeneChip Human Exon 1.0 ST array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
Scan protocol GeneChips were scanned using the GeneChip Scanner 3000 7G (Affymetrix).
Description Probeset expression data from NA11992 growth 2
Data processing The data were analyzed with Affymetrix Power Tools package using Affymetrix default analysis settings and sketch quantile as normalization method.
 
Submission date Oct 18, 2007
Last update date Aug 14, 2011
Contact name Tony Kwan
E-mail(s) tony.kwan@mcgill.ca
Phone 514-398-3311
Organization name McGill University
Department Human Genetics
Street address 740 Dr. Penfield
City Montreal
State/province Quebec
ZIP/Postal code H3A 0G1
Country Canada
 
Platform ID GPL5175
Series (1)
GSE9372 Genome-wide analysis of transcript isoform variation in humans

Data table header descriptions
ID_REF transcript cluster identifier
VALUE PLIER calculated probeset and metaprobeset signal intensity
DABG Detection above background p-value

Data table
ID_REF VALUE DABG
3948543 259 0.00000
3063807 85 0.00000
3096575 156 0.00000
2949118 485 0.00000
3227645 527 0.00000
4014076 50 0.00000
2637819 2 0.05021
3850234 259 0.00000
3719161 815 0.00000
2916345 421 0.00000
2342904 84 0.00012
3817464 98 0.00000
2408437 86 0.03229
3932148 347 1.00000
3375091 754 0.00000
3653619 336 0.00000
2818035 27 0.00000
3063795 129 0.00000
2981874 107 0.00000
3227634 27 0.01179

Total number of rows: 17742

Table truncated, full table size 337 Kbytes.




Supplementary file Size Download File type/resource
GSM238572.cel.gz 23.3 Mb (ftp)(http) CEL
Processed data included within Sample table

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