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Sample GSM224798 Query DataSets for GSM224798
Status Public on Aug 04, 2008
Title WR_36hpf_rep2 (WR36_3-2)
Sample type RNA
 
Source name Wild type retina, 36hpf, pool of ten tissues
Organism Danio rerio
Characteristics Strain: AB
Genotype: Wild-type
Age: 36hpf
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, 36hpf, 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 154.313
AFFX-BioB-5_at 243.323
AFFX-BioB-M_at 216.934
AFFX-BioC-3_at 525.481
AFFX-BioC-5_at 508.301
AFFX-BioDn-3_at 1458.01
AFFX-BioDn-5_at 862.311
AFFX-CreX-3_at 5965.79
AFFX-CreX-5_at 4606.3
AFFX-DapX-3_at 518.48
AFFX-DapX-5_at 103.081
AFFX-DapX-M_at 152.333
AFFX-Dr-AB076373-1_at 33.3148
AFFX-Dr-acta1-3_at 0
AFFX-Dr-acta1-5_at 101.331
AFFX-Dr-acta1-5_x_at 148.297
AFFX-Dr-acta1-M_at 154.109
AFFX-Dr-AF292559-1_at 16.8482
AFFX-Dr-AF292559-2_s_at 20.6543
AFFX-Dr-AF292559-3_s_at 26.4706

Total number of rows: 15617

Table truncated, full table size 374 Kbytes.




Supplementary file Size Download File type/resource
GSM224798.CEL.gz 3.4 Mb (ftp)(http) CEL
GSM224798.EXP.gz 514 b (ftp)(http) EXP
Raw data provided as supplementary file
Processed data included within Sample table

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