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Sample GSM325526 Query DataSets for GSM325526
Status Public on Dec 25, 2008
Title MZ_124_GFP_pos3, biological replicate 3
Sample type RNA
 
Source name MZ_124_GFP_pos
Organism Danio rerio
Characteristics CNS cells
Mzdicer mutant zebrafish embryos, 14-16 somites
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 66.1 P 0.001102
AFFX-BioB-M_at 76.8 P 0.00011
AFFX-BioB-3_at 41.1 P 0.000972
AFFX-BioC-5_at 128.4 P 0.00007
AFFX-BioC-3_at 126.4 P 0.000044
AFFX-BioDn-5_at 436.6 P 0.000044
AFFX-BioDn-3_at 732.9 P 0.000044
AFFX-CreX-5_at 1701 P 0.000044
AFFX-CreX-3_at 3349.9 P 0.000044
AFFX-DapX-5_at 33.1 P 0.000662
AFFX-DapX-M_at 331.8 P 0.000052
AFFX-DapX-3_at 854.6 P 0.000044
AFFX-LysX-5_at 10.7 A 0.102165
AFFX-LysX-M_at 47.1 P 0.000509
AFFX-LysX-3_at 168.8 P 0.000044
AFFX-PheX-5_at 19.3 P 0.004017
AFFX-PheX-M_at 41.3 P 0.000052
AFFX-PheX-3_at 157.9 P 0.00007
AFFX-ThrX-5_at 13.1 M 0.058444
AFFX-ThrX-M_at 73.6 P 0.00006

Total number of rows: 15617

Table truncated, full table size 496 Kbytes.




Supplementary file Size Download File type/resource
GSM325526.CEL.gz 2.2 Mb (ftp)(http) CEL
Raw data provided as supplementary file
Processed data included within Sample table

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