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Sample GSM224832 Query DataSets for GSM224832
Status Public on Aug 04, 2008
Title YR_52hpf_rep3 (YR52_8-3)
Sample type RNA
 
Source name Young mutant retina, 52hpf, pool of ten tissues
Organism Danio rerio
Characteristics Strain: AB
Genotype: young
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. The young mutants were staged by staging their wild-type siblings.
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 Young mutant retina, 52hpf, pool of ten tissues, biological replicate 3
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 150.869
AFFX-BioB-5_at 223.77
AFFX-BioB-M_at 198.536
AFFX-BioC-3_at 577.783
AFFX-BioC-5_at 545.584
AFFX-BioDn-3_at 1698.32
AFFX-BioDn-5_at 970.072
AFFX-CreX-3_at 7245.38
AFFX-CreX-5_at 5015.91
AFFX-DapX-3_at 330.835
AFFX-DapX-5_at 121.26
AFFX-DapX-M_at 203.978
AFFX-Dr-AB076373-1_at 46.031
AFFX-Dr-acta1-3_at 0
AFFX-Dr-acta1-5_at 94.8498
AFFX-Dr-acta1-5_x_at 616.986
AFFX-Dr-acta1-M_at 300.165
AFFX-Dr-AF292559-1_at 18.9971
AFFX-Dr-AF292559-2_s_at 29.6612
AFFX-Dr-AF292559-3_s_at 6.8685

Total number of rows: 15617

Table truncated, full table size 374 Kbytes.




Supplementary file Size Download File type/resource
GSM224832.CEL.gz 3.4 Mb (ftp)(http) CEL
GSM224832.EXP.gz 519 b (ftp)(http) EXP
Raw data provided as supplementary file
Processed data included within Sample table

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