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Sample GSM224802 Query DataSets for GSM224802
Status Public on Aug 04, 2008
Title WR_52hpf_rep2 (WR52_4-2)
Sample type RNA
 
Source name Wild type retina, 52hpf, pool of ten tissues
Organism Danio rerio
Characteristics Strain: AB
Genotype: Wild-type
Age: 52hpf
Tissue: Retina
Biomaterial provider Yuk Fai Leung/John E. Dowling
Treatment protocol Ten tissues were dissected from developing embryos according to: Leung YF, Dowling JE. Gene Expression Profiling of Zebrafish Embryonic Retina. Zebrafish 2005:2:269-283., and pooled as one biological replicate.
Growth protocol Fish and embryos were maintained according to Westerfield, M. The zebrafish book. A guide for the laboratory use of zebrafish (Danio rerio), 4th edition. University of Oregon Press, Eugene, 2000.
Extracted molecule total RNA
Extraction protocol Total RNA was extracted from the pooled samples according to: Leung YF, Dowling JE. Gene Expression Profiling of Zebrafish Embryonic Retina. Zebrafish 2005:2:269-283.
Label Biotin
Label protocol Thirty-three nanograms of total RNA were labeled by Affymetrix GeneChip Two-Cycle Target Labeling protocol.
 
Hybridization protocol Hybridization, washing and staining were done according to a standard procedure from Affymetrix.
Scan protocol Scanning was done according to a standard procedure from Affymetrix.
Description Wild type retina, 52hpf, pool of ten tissues, biological replicate 2
Data processing The probe-level data were background adjusted, normalized and summarized by a dChip (http://www.dchip.org) algorithm using default parameters.
 
Submission date Aug 24, 2007
Last update date Aug 14, 2011
Contact name Yuk Fai Leung
E-mail(s) yfleung@purdue.edu
Phone 765-496-3153
Organization name Purdue University
Department Biological Sciences
Lab Leung
Street address 915 W. State Street
City West Lafayette
State/province IN
ZIP/Postal code 47907
Country USA
 
Platform ID GPL1319
Series (1)
GSE8874 Factorial Microarray Analysis of Zebrafish Retinal Development

Data table header descriptions
ID_REF
VALUE The probe-level data were background adjusted, normalized and summarized by a dChip (http://www.dchip.org) algorithm using default parameters.

Data table
ID_REF VALUE
AFFX-BioB-3_at 153.69
AFFX-BioB-5_at 222.721
AFFX-BioB-M_at 207.054
AFFX-BioC-3_at 516.26
AFFX-BioC-5_at 507.974
AFFX-BioDn-3_at 1793.09
AFFX-BioDn-5_at 913.173
AFFX-CreX-3_at 6971.47
AFFX-CreX-5_at 5401.48
AFFX-DapX-3_at 373.169
AFFX-DapX-5_at 83.1138
AFFX-DapX-M_at 119.073
AFFX-Dr-AB076373-1_at 39.7865
AFFX-Dr-acta1-3_at 0
AFFX-Dr-acta1-5_at 77.7965
AFFX-Dr-acta1-5_x_at 217.065
AFFX-Dr-acta1-M_at 194.296
AFFX-Dr-AF292559-1_at 34.7504
AFFX-Dr-AF292559-2_s_at 26.2126
AFFX-Dr-AF292559-3_s_at 0

Total number of rows: 15617

Table truncated, full table size 374 Kbytes.




Supplementary file Size Download File type/resource
GSM224802.CEL.gz 3.4 Mb (ftp)(http) CEL
GSM224802.EXP.gz 512 b (ftp)(http) EXP
Raw data provided as supplementary file
Processed data included within Sample table

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