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Sample GSM710935 Query DataSets for GSM710935
Status Public on Nov 23, 2011
Title SJTALL165
Sample type RNA
 
Source name RNA extracted from diagnostic leukemic blasts of early T-cell precursor acute lymphoblastic leukemia
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 Nov 23, 2011
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

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

Data table
ID_REF VALUE
1007_PM_s_at 3.983044708
1053_PM_at 6.581393636
117_PM_at 2.736889213
121_PM_at 4.841437071
1255_PM_g_at 2.241834947
1294_PM_at 8.517911763
1316_PM_at 5.224533496
1320_PM_at 2.463607473
1405_PM_i_at 4.009780106
1431_PM_at 3.621399868
1438_PM_at 2.830230621
1487_PM_at 4.772742846
1494_PM_f_at 2.844200181
1552256_PM_a_at 5.451977304
1552257_PM_a_at 6.788018358
1552258_PM_at 4.490010456
1552261_PM_at 2.678757142
1552263_PM_at 7.571055993
1552264_PM_a_at 7.795895004
1552266_PM_at 2.224708486

Total number of rows: 54715

Table truncated, full table size 1373 Kbytes.




Supplementary file Size Download File type/resource
GSM710935_SJTALL165_HTU133PM.CEL.gz 2.0 Mb (ftp)(http) CEL
Processed data included within Sample table

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