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Sample GSM710919 Query DataSets for GSM710919
Status Public on Nov 23, 2011
Title SJTALL077
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 GSM1058687

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

Data table
ID_REF VALUE
1007_PM_s_at 6.025615227
1053_PM_at 7.220175978
117_PM_at 2.891833958
121_PM_at 4.717288398
1255_PM_g_at 2.377522167
1294_PM_at 7.03880158
1316_PM_at 4.371228703
1320_PM_at 2.755447154
1405_PM_i_at 4.61474619
1431_PM_at 2.739691689
1438_PM_at 2.608333044
1487_PM_at 4.677419949
1494_PM_f_at 2.638503833
1552256_PM_a_at 4.293998958
1552257_PM_a_at 6.9345013
1552258_PM_at 3.817381388
1552261_PM_at 2.772460806
1552263_PM_at 6.328023854
1552264_PM_a_at 6.358605389
1552266_PM_at 2.349547717

Total number of rows: 54715

Table truncated, full table size 1373 Kbytes.




Supplementary file Size Download File type/resource
GSM710919_SJTALL077_HTU133PM.CEL.gz 2.0 Mb (ftp)(http) CEL
Processed data included within Sample table

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