GEO Logo
   NCBI > GEO > Accession DisplayHelp Not logged in | LoginHelp
GEO help: Mouse over screen elements for information.
Sample GSM325517 Query DataSets for GSM325517
Status Public on Dec 25, 2008
Title wt_124_GFP_neg1, biological replicate 1
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 76.9 P 0.006871
AFFX-BioB-M_at 66.8 P 0.000857
AFFX-BioB-3_at 51.3 P 0.010317
AFFX-BioC-5_at 151 P 0.000127
AFFX-BioC-3_at 112.1 P 0.00006
AFFX-BioDn-5_at 431.3 P 0.000044
AFFX-BioDn-3_at 1059.8 P 0.000195
AFFX-CreX-5_at 2101 P 0.000044
AFFX-CreX-3_at 4298 P 0.000044
AFFX-DapX-5_at 32.9 P 0.005565
AFFX-DapX-M_at 307.2 P 0.000754
AFFX-DapX-3_at 918.3 P 0.000044
AFFX-LysX-5_at 8 A 0.354453
AFFX-LysX-M_at 56.7 P 0.033677
AFFX-LysX-3_at 148.8 P 0.00006
AFFX-PheX-5_at 14.4 A 0.062929
AFFX-PheX-M_at 25.4 P 0.004017
AFFX-PheX-3_at 198.2 P 0.000081
AFFX-ThrX-5_at 21.3 A 0.250796
AFFX-ThrX-M_at 60.8 P 0.001102

Total number of rows: 15617

Table truncated, full table size 497 Kbytes.

Supplementary file Size Download File type/resource
GSM325517.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