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Sample GSM325522 Query DataSets for GSM325522
Status Public on Dec 25, 2008
Title MZ_124_GFP_pos1, biological replicate 1
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 55 P 0.000754
AFFX-BioB-M_at 83.6 P 0.000095
AFFX-BioB-3_at 41.9 P 0.00844
AFFX-BioC-5_at 116.6 P 0.000081
AFFX-BioC-3_at 123.3 P 0.000052
AFFX-BioDn-5_at 390 P 0.000044
AFFX-BioDn-3_at 703.9 P 0.000044
AFFX-CreX-5_at 1583.9 P 0.000044
AFFX-CreX-3_at 2769.8 P 0.000044
AFFX-DapX-5_at 35.3 P 0.001593
AFFX-DapX-M_at 227.3 P 0.00007
AFFX-DapX-3_at 500.8 P 0.000044
AFFX-LysX-5_at 8.9 P 0.039648
AFFX-LysX-M_at 35.3 P 0.006187
AFFX-LysX-3_at 106.5 P 0.00007
AFFX-PheX-5_at 11.5 A 0.123572
AFFX-PheX-M_at 23.3 P 0.00007
AFFX-PheX-3_at 84.1 P 0.000095
AFFX-ThrX-5_at 12.2 A 0.156732
AFFX-ThrX-M_at 52.5 P 0.000169

Total number of rows: 15617

Table truncated, full table size 497 Kbytes.




Supplementary file Size Download File type/resource
GSM325522.CEL.gz 2.2 Mb (ftp)(http) CEL
Raw data provided as supplementary file
Processed data included within Sample table

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