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Sample GSM195197 Query DataSets for GSM195197
Status Public on Aug 08, 2007
Title NA12750 growth 2, replicate 3
Sample type RNA
 
Source name CEU NA12750 Biological growth 2, Technical replicate 3
Organism Homo sapiens
Characteristics Gender: male, Cell-type: lymphoblasts
Coriell cell line repository identifier: GM12750
http://locus.umdnj.edu/nigms/nigms_cgi/display.cgi?GM12750
Biomaterial provider Coriell Cell Repositories http://ccr.coriell.org/Sections/Search/Search.aspx?PgId=165&q=NA12750
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 NA12750 growth 2, replicate 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 May 29, 2007
Last update date Apr 26, 2009
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 91 0.00000
3063807 48 0.00000
3096575 33 0.00000
2949118 196 0.00000
3227645 130 0.00000
4014076 8 0.00000
2637819 6 0.00547
3850234 94 0.00000
3719161 243 0.00000
2916345 105 0.00000
2342904 3 0.00210
3817464 41 0.00000
3932148 87 1.00000
3375091 230 0.00000
3653619 82 0.00000
2818035 18 0.00000
3063795 25 0.00188
2981874 40 0.00000
3227634 27 0.01075
2375664 200 0.00000

Total number of rows: 17589

Table truncated, full table size 327 Kbytes.




Supplementary file Size Download File type/resource
GSM195197.cel.gz 35.7 Mb (ftp)(http) CEL
Processed data included within Sample table

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