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Sample GSM224831 Query DataSets for GSM224831
Status Public on Aug 04, 2008
Title YR_52hpf_rep2 (YR52_8-2)
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 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 196.583
AFFX-BioB-5_at 246.629
AFFX-BioB-M_at 233.704
AFFX-BioC-3_at 627.846
AFFX-BioC-5_at 604.731
AFFX-BioDn-3_at 2070.77
AFFX-BioDn-5_at 1030.02
AFFX-CreX-3_at 8812.61
AFFX-CreX-5_at 6012.56
AFFX-DapX-3_at 409.873
AFFX-DapX-5_at 96.5254
AFFX-DapX-M_at 184.191
AFFX-Dr-AB076373-1_at 53.3054
AFFX-Dr-acta1-3_at 0
AFFX-Dr-acta1-5_at 98.621
AFFX-Dr-acta1-5_x_at 248.215
AFFX-Dr-acta1-M_at 177.253
AFFX-Dr-AF292559-1_at 20.5438
AFFX-Dr-AF292559-2_s_at 32.935
AFFX-Dr-AF292559-3_s_at 40.034

Total number of rows: 15617

Table truncated, full table size 374 Kbytes.




Supplementary file Size Download File type/resource
GSM224831.CEL.gz 3.4 Mb (ftp)(http) CEL
GSM224831.EXP.gz 516 b (ftp)(http) EXP
Raw data provided as supplementary file
Processed data included within Sample table

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