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Sample GSM201522 Query DataSets for GSM201522
Status Public on Aug 08, 2007
Title NA12739 growth 3
Sample type RNA
 
Source name CEU NA12739 Biological growth 3
Organism Homo sapiens
Characteristics Gender: male, Cell-type: lymphoblasts
Coriell cell line repository identifier:GM12739
http://locus.umdnj.edu/nigms/nigms_cgi/display.cgi?GM12739
Biomaterial provider Coriell Cell Repositories http://ccr.coriell.org/Sections/Search/Search.aspx?PgId=165&q=NA12739
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 NA12739 growth 3
Data processing The data were analyzed with Affymetrix Power Tools package using Affymetrix default analysis settings and sketch quantile as normalization method.
 
Submission date Jun 14, 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)
GSE7952 Heritability of alternative splicing in the human genome

Data table header descriptions
ID_REF transcript cluster identifier
VALUE PLIER calculated metaprobeset signal intensity
DABG Detection above background

Data table
ID_REF VALUE DABG
3948543 111 0.00000
3063807 86 0.00070
3096575 75 0.00000
2949118 298 0.00000
3227645 102 0.00000
4014076 11 0.00000
2637819 1 0.55510
3850234 120 0.00000
3719161 207 0.00000
2916345 63 0.00000
2342904 22 0.01830
3817464 96 0.00000
2408437 37 0.14457
3932148 40 0.00000
3375091 141 0.00000
3653619 86 0.00000
2818035 13 0.00004
3063795 30 0.00229
2359282 104 0.01319
2981874 43 0.00000

Total number of rows: 17897

Table truncated, full table size 333 Kbytes.




Supplementary file Size Download File type/resource
GSM201522.cel.gz 34.5 Mb (ftp)(http) CEL
Processed data included within Sample table

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