NCBI Logo
GEO Logo
   NCBI > GEO > Accession DisplayHelp Not logged in | LoginHelp
GEO help: Mouse over screen elements for information.
          Go
Sample GSM448985 Query DataSets for GSM448985
Status Public on Feb 01, 2011
Title Wild-type embryos heat-shocked for 30 mins and posterior PSM dissected after 30 mins, biological rep4
Sample type RNA
 
Source name Zebrafish embryos paraxial mesoderm
Organism Danio rerio
Characteristics protocol: embryos heat-shocked for 30 mins, posterior presomitic mesoderm dissected after 30 mins
tissue: posterior PSM
genotype: wild-type AB
age: 12-somite stage
Treatment protocol Embryos are either incubated in drugs (RA, DMSO, DAPT) at room temperature (24C°) or heat-shocked at 37C° then transfered to 24C°. Embryos were manually dechorionated at 24C°. Selected embryos were transferred to a basket in L15 media. Embryos were manually dissected and the tissue sections were placed in the Trizol solution (Invitrogen) and frozen immediately on dry ice and stored at -80C°.
Growth protocol Embryos from AB line were grown at 24C° untill 12-somite stage.
Extracted molecule total RNA
Extraction protocol Trizol extraction of total RNA was performed.
Label biotin
Label protocol Biotinylated cRNA were prepared by using Affymetrix GeneChip Expression 3'-Amplification Reagents for IVT Labeling kit.
 
Hybridization protocol Each chip was hybridized to 13 μg fragmented cRNA. Arrays were hybridized according to the manufacturer’s instructions.
Scan protocol GeneChips were scanned with a Affymetrix GeneChip Scanner 3000 7G at the Microarray Core Facility of the Stowers Institute for Medical Research
Description Gene expression data from heat-shocked embryos
Wild-type embryos heat-shocked for 30 minutes and posterior presomitic mesoderm is dissected 30 minutes , biological rep4
Data processing The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 150.
 
Submission date Sep 03, 2009
Last update date Feb 01, 2011
Contact name Olivier Pourquie
E-mail(s) olp@stowers.org
Phone 816-926-4442
Fax 816-926-2095
Organization name Stowers Institute for Medical Research
Lab Pourquie
Street address 1000 E. 50th Street
City Kansas City
State/province MO
ZIP/Postal code 64110
Country USA
 
Platform ID GPL1319
Series (1)
GSE17949 Integrated cell-to-cell signaling networks regulate vertebrate axis formation and left-right asymmetry

Data table header descriptions
ID_REF
VALUE MAS5.0 signal intensity

Data table
ID_REF VALUE
AFFX-BioB-3_at 71.12071
AFFX-BioB-5_at 91.54169
AFFX-BioB-M_at 106.7417
AFFX-BioC-3_at 219.5073
AFFX-BioC-5_at 225.5431
AFFX-BioDn-3_at 822.2119
AFFX-BioDn-5_at 373.1417
AFFX-CreX-3_at 4518.514
AFFX-CreX-5_at 3253.446
AFFX-DapX-3_at 4676.206
AFFX-DapX-5_at 100.6049
AFFX-DapX-M_at 1835.515
AFFX-Dr-AB076373-1_at 3.603343
AFFX-Dr-acta1-3_at 180.5785
AFFX-Dr-acta1-5_at 23.96029
AFFX-Dr-acta1-5_x_at 58.39858
AFFX-Dr-acta1-M_at 83.34058
AFFX-Dr-AF292559-1_at 3.095236
AFFX-Dr-AF292559-2_s_at 3.896993
AFFX-Dr-AF292559-3_s_at 1.782802

Total number of rows: 15617

Table truncated, full table size 391 Kbytes.




Supplementary file Size Download File type/resource
GSM448985.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