GEO Logo
   NCBI > GEO > Accession DisplayHelp Not logged in | LoginHelp
GEO help: Mouse over screen elements for information.
Sample GSM325519 Query DataSets for GSM325519
Status Public on Dec 25, 2008
Title wt_124_GFP_neg2, biological replicate 2
Sample type RNA
Source name 124_GFP_neg
Organism Danio rerio
Characteristics non-CNS cells
wild-type zebrafish embryos, 16 hpf
Growth protocol Zebrafish embryos were incubated at 28C in the E3 soluion
Extracted molecule total RNA
Extraction protocol Trizol extraction of total RNA was performed according to the manufacturer's instructions.
Label biotin
Label protocol Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 100 ng total RNA.
Hybridization protocol Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Zebrafish Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
Scan protocol GeneChips were scanned using the Affymetrix GeneArray Scanner.
Description Gene expression data from GFP-negative cells from the rest of the body
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.
Submission date Sep 30, 2008
Last update date Nov 15, 2008
Contact name Alena Shkumatava
Organization name Whitehead Institute/MIT
Department Bartel Lab
Street address 9 Cambridge Center
City Cambridge
State/province MA
ZIP/Postal code 02142
Country USA
Platform ID GPL1319
Series (1)
GSE12991 Isolation of single miRNA-expressing cells from zebrafish embryos

Data table header descriptions
VALUE MAS5.0 signal intensity

Data table
AFFX-BioB-5_at 147.5 P 0.001796
AFFX-BioB-M_at 101.9 P 0.001102
AFFX-BioB-3_at 66.5 P 0.015183
AFFX-BioC-5_at 203.3 P 0.000857
AFFX-BioC-3_at 154.3 P 0.000258
AFFX-BioDn-5_at 576.5 P 0.000044
AFFX-BioDn-3_at 1461.2 P 0.001102
AFFX-CreX-5_at 3053.3 P 0.000044
AFFX-CreX-3_at 4219.8 P 0.000044
AFFX-DapX-5_at 22 P 0.013811
AFFX-DapX-M_at 201.4 P 0.00141
AFFX-DapX-3_at 672.1 P 0.00006
AFFX-LysX-5_at 10.4 A 0.195266
AFFX-LysX-M_at 52.4 M 0.046482
AFFX-LysX-3_at 204.2 P 0.00006
AFFX-PheX-5_at 11.3 A 0.287743
AFFX-PheX-M_at 28.9 P 0.030976
AFFX-PheX-3_at 309.3 P 0.00007
AFFX-ThrX-5_at 20.9 A 0.262827
AFFX-ThrX-M_at 44.7 P 0.013811

Total number of rows: 15617

Table truncated, full table size 497 Kbytes.

Supplementary file Size Download File type/resource
GSM325519.CEL.gz 2.2 Mb (ftp)(http) CEL
Raw data provided as supplementary file
Processed data included within Sample table

| NLM | NIH | GEO Help | Disclaimer | Accessibility |
NCBI Home NCBI Search NCBI SiteMap