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Sample GSM1510154 Query DataSets for GSM1510154
Status Public on May 01, 2015
Title yto001
Sample type RNA
 
Source name embryo control
Organism Mus musculus
Characteristics strain background (for tissue): FVB
genotype/variation (for tissue): loxP TP53/RB/PTEN (no Cre)
tissue class: Embryonic day 18 (embryo control)
Treatment protocol all samples are untreated tissues
Growth protocol not applicable
Extracted molecule total RNA
Extraction protocol Isolation was performed using RNA STAT-60, according to the manufacturer's instructions. Briefly, tissue samples were homogenized in the STAT-60 using teflon homogenizers. Chloroform was added and the samples centrifuged. The upper layer (aqueous phase) was removed to a fresh tube and the RNA precipitated with isopropanol. Following centrifugation, the RNA pellet was washed once in 75% ethanol, then the air-dried pellet resuspended in DEPC-treated water.
Label Biotin
Label protocol Biotinylated cRNA were prepared according to the standard Affymetrix Two-Cycle protocol from 100 ng of total RNA (Expression Analysis Technical Manual, 2005-2006, Affymetrix).
 
Hybridization protocol Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Mouse 430 v2.0. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
Scan protocol GeneChips were scanned using the GeneChip Scanner 3000 7G.
Data processing The data were analyzed with Partek Genomics Suite (v.6.6) by the RMA algorithmn
 
Submission date Sep 23, 2014
Last update date May 01, 2015
Contact name David Finkelstein
E-mail(s) david.finkelstein@stjude.org
Phone 9014953931
Organization name St Jude Children's Research Hospital
Department Computational Biology
Street address 332 N. Lauderdale St.
City Memphis
State/province TN
ZIP/Postal code 38105
Country USA
 
Platform ID GPL1261
Series (1)
GSE61659 Cross-species genomics identifies postanatal CPE as novel choroid plexus carcinoma oncogenes.

Data table header descriptions
ID_REF
VALUE RMA normalized log2 signal

Data table
ID_REF VALUE
1415670_at 9.46739
1415671_at 10.6165
1415672_at 11.3832
1415673_at 7.90017
1415674_a_at 9.21325
1415675_at 9.2516
1415676_a_at 11.5827
1415677_at 9.5442
1415678_at 10.3047
1415679_at 11.171
1415680_at 8.80032
1415681_at 10.168
1415682_at 7.75412
1415683_at 9.54215
1415684_at 8.22122
1415685_at 7.68532
1415686_at 9.94355
1415687_a_at 12.8653
1415688_at 10.4059
1415689_s_at 10.0034

Total number of rows: 45101

Table truncated, full table size 850 Kbytes.




Supplementary file Size Download File type/resource
GSM1510154_yto001-430v2.CEL.gz 3.9 Mb (ftp)(http) CEL
Processed data included within Sample table

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