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Sample GSM710901 Query DataSets for GSM710901
Status Public on Nov 23, 2011
Title SJTALL056
Sample type RNA
 
Source name RNA extracted from diagnostic leukemic blasts of T-cell precursor acute lymphoblastic leukemia (non-ETP)
Organism Homo sapiens
Characteristics cell type: tumor cells
Growth protocol RNA was extracted from cryopreserved mononuclear cell preparations of diagnostic bone marrow or peripheral blood from T-ALL cases
Extracted molecule total RNA
Extraction protocol Trizol
Label biotin
Label protocol Biotinylated cRNA were prepared according to the standard Affymetrix 3’IVT Express protocol starting with 100 ng of total RNA (GeneChip 3’ IVT Express Kit 702646 Rev. 8, 2008-2010, Affymetrix)
 
Hybridization protocol Following fragmentation, 5 microgram of cRNA was hybridized for 16 hr at 45C on each array. GeneChips were washed and stained in the Affymetrix GeneTitan system.
Scan protocol GeneChips were scanned using the Affymetrix GeneTitan system.
Description RNA extracted from tumor cells obtained at diagnosis
Data processing Data were background adjusted, normalized and summarized by the RMA method. The Bioconductor package was used for this analysis.
 
Submission date Apr 19, 2011
Last update date Dec 31, 2012
Contact name Charles G Mullighan
E-mail(s) charles.mullighan@stjude.org
Phone 1-901-595-3387
Organization name St Jude Children's Research Hospital
Department Pathology
Street address 262 Danny Thomas Place
City Memphis
State/province TN
ZIP/Postal code 38105
Country USA
 
Platform ID GPL13158
Series (1)
GSE28703 Discovery of novel recurrent mutations and rearrangements in early T-cell precursor acute lymphoblastic leukemia by whole genome sequencing
Relations
Reanalyzed by GSM1058680

Data table header descriptions
ID_REF
VALUE RMA signal intensity (log2 scale)

Data table
ID_REF VALUE
1007_PM_s_at 5.448029037
1053_PM_at 6.250033579
117_PM_at 3.113912163
121_PM_at 4.196210089
1255_PM_g_at 2.324877824
1294_PM_at 7.441853112
1316_PM_at 4.51572094
1320_PM_at 2.592351893
1405_PM_i_at 4.873218553
1431_PM_at 3.035231505
1438_PM_at 2.461440346
1487_PM_at 4.30237603
1494_PM_f_at 2.827502266
1552256_PM_a_at 4.066862962
1552257_PM_a_at 6.536041563
1552258_PM_at 3.262428834
1552261_PM_at 2.641878399
1552263_PM_at 5.508418887
1552264_PM_a_at 5.385249917
1552266_PM_at 2.261871654

Total number of rows: 54715

Table truncated, full table size 1373 Kbytes.




Supplementary file Size Download File type/resource
GSM710901_SJTALL056_HTU133PM.CEL.gz 1.9 Mb (ftp)(http) CEL
Processed data included within Sample table

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