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Sample GSM289394 Query DataSets for GSM289394
Status Public on May 19, 2008
Title p53 M214K/M214K MPNST_83
Sample type RNA
 
Source name Malignant peripheral nerve sheath tumors from fish homozygous for inactivating mutation in p53
Organism Danio rerio
Characteristics Late stage MPNST from zebrafish fish 18-24 months old
Treatment protocol Tumors were dissected from zebrafish anaesthetized with 0.03% MESAB
Growth protocol Zebrafish raised according to standard protocols
Extracted molecule total RNA
Extraction protocol Trizol according to the manufacturer's protocol
Label Biotin
Label protocol Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 5 ug total RNA according to the Affymetrix Expression Analysis Technical Manual.
 
Hybridization protocol Following fragmentation, 20 ug of cRNA were hybridized for 16 hr at 45C on Zebrafish Genome Arrays. GeneChips were washed and stained in the Affymetrix Fluidics Station 400 (A4 samples) or 450 (A5 and A7 samples).
Scan protocol GeneChips were scanned using the Hewlett-Packard GeneArray Scanner (A4 samples) or Affymetrix 7G scanner (A5 and A7 samples).
Description no additional information
Data processing Bioconductor Affy package and gcRMA
 
Submission date May 19, 2008
Last update date May 19, 2008
Contact name Charles Arthur Whittaker
E-mail(s) charliew@mit.edu
Organization name Koch Institute
Street address 77 Mass Ave 76-189
City Cambridge
State/province MA
ZIP/Postal code 02152
Country USA
 
Platform ID GPL1319
Series (1)
GSE11493 Comparison of transcripts in zebrafish tumors

Data table header descriptions
ID_REF
VALUE gcRMA-calculated, log2 expression values

Data table
ID_REF VALUE
Dr.1.1.S1_at 7.79542165
Dr.10.1.S1_at 1.73084989
Dr.10.4.S1_a_at 2.314553131
Dr.100.1.A1_at 2.790299013
Dr.1000.1.S1_at 11.54355974
Dr.10000.1.A1_at 1.536558041
Dr.10005.1.A1_at 7.868760946
Dr.10006.1.A1_at 10.0243407
Dr.10010.1.A1_at 3.020588279
Dr.10011.1.A1_at 8.442482247
Dr.10012.1.A1_at 3.700957806
Dr.10014.1.A1_at 1.850575498
Dr.10015.1.S1_at 3.160236815
Dr.10015.2.S1_a_at 3.362151227
Dr.10015.2.S1_at 2.266616688
Dr.10016.1.A1_at 4.749397837
Dr.10018.1.S1_at 2.202913085
Dr.1002.1.S1_at 9.7191033
Dr.10022.1.S1_at 5.38706709
Dr.10023.1.A1_at 1.917958634

Total number of rows: 15502

Table truncated, full table size 433 Kbytes.




Supplementary file Size Download File type/resource
GSM289394.CEL.gz 3.4 Mb (ftp)(http) CEL
Raw data provided as supplementary file
Processed data included within Sample table

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