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Sample GSM289393 Query DataSets for GSM289393
Status Public on May 19, 2008
Title p53 M214K/M214K MPNST_74
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
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
VALUE gcRMA-calculated, log2 expression values

Data table
Dr.1.1.S1_at 6.649002932
Dr.10.1.S1_at 1.698711604
Dr.10.4.S1_a_at 2.306647374
Dr.100.1.A1_at 2.720049078
Dr.1000.1.S1_at 11.86156623
Dr.10000.1.A1_at 1.503319647
Dr.10005.1.A1_at 7.142618932
Dr.10006.1.A1_at 10.04091934
Dr.10010.1.A1_at 2.617532424
Dr.10011.1.A1_at 7.49255802
Dr.10012.1.A1_at 3.708119483
Dr.10014.1.A1_at 1.806386103
Dr.10015.1.S1_at 3.113061334
Dr.10015.2.S1_a_at 3.34775506
Dr.10015.2.S1_at 2.212868769
Dr.10016.1.A1_at 6.606536755
Dr.10018.1.S1_at 2.176854538
Dr.1002.1.S1_at 10.08603659
Dr.10022.1.S1_at 5.814335214
Dr.10023.1.A1_at 1.877376942

Total number of rows: 15502

Table truncated, full table size 433 Kbytes.

Supplementary file Size Download File type/resource
GSM289393.CEL.gz 3.4 Mb (ftp)(http) CEL
Raw data provided as supplementary file
Processed data included within Sample table

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