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Sample GSM641616 Query DataSets for GSM641616
Status Public on Dec 29, 2010
Title tumor_29, expression
Sample type RNA
 
Source name spleen, APL
Organism Mus musculus
Characteristics strain: Bl/6 Taconic
tissue: spleen
disease state: acute promyelocytic leukemia (APL)
Extracted molecule total RNA
Extraction protocol Total cellular RNA was purified using Trizol reagent, quantified using UV spectroscopy (Nanodrop Technologies, Wilmington,DE) and qualitatively assessed using an Experian Bioanalyzer (Hercules,CA). Amplified cDNA was prepared from 20ng of total RNA using the whole transcript WT-Ovation TM RNA Amplification System.
Label biotin
Label protocol Amplified cDNA was biotin labeled using the Encore Biotin Module (NuGen Technologies, San Carlos, CA) according to the manufacturer’s instructions.
 
Hybridization protocol Labeled targets were then hybridized to Mouse Exon 1.0S T arrays (Affymetrix, Santa Clara, CA).
Scan protocol GeneChips were scanned using Affymetrix GeneArray scanner GS 3000.
Data processing Raw data were processed with the RMA algorithm in Affymetrix Expression ConsoleTM version1.1 (Affymetrix Inc., USA).

This analysis included core exons.
Probe-group file: MoEx-1_0-st-v1.r2.pgf
Meta-probeset file: MoEx-1_0-st-v1.r2.dt1.mm9.core.mps
 
Submission date Dec 16, 2010
Last update date Dec 29, 2010
Contact name Nobish Varghese
E-mail(s) nvarghese@path.wustl.edu
Organization name Washington University in St.Louis
Street address 4444 Forest Park Ave.
City StLouis
State/province MO
ZIP/Postal code 63110
Country USA
 
Platform ID GPL6193
Series (2)
GSE26128 Exon array data from mouse APL tumors
GSE26131 Conserved progression mutations revealed by sequencing a mouse acute promyelocytic leukemia genome

Data table header descriptions
ID_REF
VALUE Exon-level RMA signal intensity

Data table
ID_REF VALUE
4304927 33.58999
4304928 3897.789
4304938 275.2304
4304943 1631.545
4304945 737.9055
4304949 236.8665
4304956 106.685
4304969 70.59165
4304972 184.9013
4304978 25.90356
4304981 91.42938
4304986 43.09516
4304997 125.2572
4305011 49.51645
4305016 225.9382
4305019 994.4067
4305028 1821.378
4305034 5890.544
4305036 1028.849
4305039 59.85827

Total number of rows: 229581

Table truncated, full table size 3786 Kbytes.




Supplementary file Size Download File type/resource
GSM641616.CEL.gz 23.8 Mb (ftp)(http) CEL
Processed data included within Sample table

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