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Sample GSM325520 Query DataSets for GSM325520
Status Public on Dec 25, 2008
Title wt_124_GFP_pos3, biological replicate 3
Sample type RNA
 
Source name 124_GFP_pos
Organism Danio rerio
Characteristics 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-positive CNS cells
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
E-mail(s) shkumata@wi.mit.edu
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
ID_REF
VALUE MAS5.0 signal intensity
ABS_CALL
DETECTION P-VALUE

Data table
ID_REF VALUE ABS_CALL DETECTION P-VALUE
AFFX-BioB-5_at 78.1 P 0.005565
AFFX-BioB-M_at 56.7 P 0.00141
AFFX-BioB-3_at 45 P 0.010317
AFFX-BioC-5_at 133.2 P 0.000095
AFFX-BioC-3_at 109 P 0.00006
AFFX-BioDn-5_at 390.5 P 0.000044
AFFX-BioDn-3_at 992.1 P 0.000147
AFFX-CreX-5_at 1748.4 P 0.000044
AFFX-CreX-3_at 3634.8 P 0.000044
AFFX-DapX-5_at 21.8 P 0.015183
AFFX-DapX-M_at 215.3 P 0.000972
AFFX-DapX-3_at 542.3 P 0.000052
AFFX-LysX-5_at 6.3 A 0.216524
AFFX-LysX-M_at 33.4 M 0.046482
AFFX-LysX-3_at 116.7 P 0.000052
AFFX-PheX-5_at 9.8 A 0.340661
AFFX-PheX-M_at 23.2 P 0.030976
AFFX-PheX-3_at 131.7 P 0.000225
AFFX-ThrX-5_at 24 A 0.139482
AFFX-ThrX-M_at 50.4 P 0.001593

Total number of rows: 15617

Table truncated, full table size 496 Kbytes.




Supplementary file Size Download File type/resource
GSM325520.CEL.gz 2.2 Mb (ftp)(http) CEL
Raw data provided as supplementary file
Processed data included within Sample table

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