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Sample GSM238595 Query DataSets for GSM238595
Status Public on Jan 13, 2008
Title NA12043 growth 1.
Sample type RNA
 
Source name CEU NA12043 Biological Growth 1
Organism Homo sapiens
Characteristics Gender: male, Cell-type: lymphoblasts
GM12043_01
Coriell cell line repository identifier:GM12043
Biomaterial provider Coriell Cell Repositories
http://ccr.coriell.org/Sections/Search/Search.aspx?PgId=165&q=GM12043
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 NA12043 growth 1
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 220 0.00000
3063807 112 0.00000
3096575 88 0.00000
2949118 307 0.00004
3227645 433 0.00000
4014076 5 0.00000
2637819 4 0.10146
3850234 272 0.00000
3719161 511 0.00000
2916345 203 0.00000
2342904 4 0.00119
3817464 157 0.00000
2408437 69 0.07053
3932148 194 1.00000
3375091 577 0.00000
3653619 250 0.00000
2818035 29 0.00000
3063795 26 0.02105
2981874 93 0.00000
3227634 82 0.01482

Total number of rows: 17742

Table truncated, full table size 336 Kbytes.




Supplementary file Size Download File type/resource
GSM238595.cel.gz 22.5 Mb (ftp)(http) CEL
Processed data included within Sample table

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