NCBI Logo
GEO Logo
   NCBI > GEO > Accession DisplayHelp Not logged in | LoginHelp
GEO help: Mouse over screen elements for information.
          Go
Sample GSM710870 Query DataSets for GSM710870
Status Public on Nov 23, 2011
Title SJTALL028
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 GSM1058675

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

Data table
ID_REF VALUE
1007_PM_s_at 4.92914504
1053_PM_at 7.374907412
117_PM_at 2.764121623
121_PM_at 4.498743594
1255_PM_g_at 2.246841605
1294_PM_at 6.934236561
1316_PM_at 4.02528458
1320_PM_at 2.816832814
1405_PM_i_at 4.607302196
1431_PM_at 2.609606287
1438_PM_at 2.739298251
1487_PM_at 3.710814457
1494_PM_f_at 2.891515517
1552256_PM_a_at 4.477087479
1552257_PM_a_at 7.037176159
1552258_PM_at 3.619062909
1552261_PM_at 2.677353454
1552263_PM_at 6.073937258
1552264_PM_a_at 6.58426067
1552266_PM_at 2.44374935

Total number of rows: 54715

Table truncated, full table size 1373 Kbytes.




Supplementary file Size Download File type/resource
GSM710870_SJTALL028_HTU133PM.CEL.gz 2.0 Mb (ftp)(http) CEL
Processed data included within Sample table

| NLM | NIH | GEO Help | Disclaimer | Accessibility |
NCBI Home NCBI Search NCBI SiteMap