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Sample GSM324903 Query DataSets for GSM324903
Status Public on Oct 10, 2008
Title zSP1
Sample type RNA
Source name Adult zebrafish kidney
Organism Danio rerio
Characteristics Wild type
Extracted molecule total RNA
Extraction protocol Cells were sorted into lysis buffer directly, and total RNAs were extracted using Absolutely RNA Nanoprep Kit (Stratagene) according to manufacturer's instructions.
Label Biotin
Label protocol Biotinylated cRNA was generated by 2 round of in vitro transcription (IVT) using MessageAmp II aRNA Amplification Kit (Applyied Biosystems).
Hybridization protocol Following fragmentation, 10 microg of cRNA was hybridized for 16 hr at 45C on GeneChip Zebrafish Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
Scan protocol GeneChips were scanned using the Affymetrix GeneChip Scanner 3000.
Description Lymphoid cells (FS-low, SS-low) from zebrafish kidney were subdivided into the SP and MP population (referred to as "zSP" and "zMP") based on the Hoechst fluorescence intensity.
Data processing Expression values were calculated by RMA algorithm using the affy package of Bioconductor (
Submission date Sep 29, 2008
Last update date Sep 30, 2008
Contact name Isao Kobayashi
Organization name Keio University
Department Cell Differentiation
Street address 35 Shinanoma-chi
City Shinjuku-ku
State/province Tokyo
ZIP/Postal code 160-8582
Country Japan
Platform ID GPL1319
Series (1)
GSE12955 Gene expression profile of zebrafish kidney side population (SP) cells

Data table header descriptions
VALUE Signal intensity

Data table
AFFX-BioB-3_at 6.675617952
AFFX-BioB-5_at 7.068625604
AFFX-BioB-M_at 7.010783558
AFFX-BioC-3_at 7.737356117
AFFX-BioC-5_at 7.906967734
AFFX-BioDn-3_at 10.72974961
AFFX-BioDn-5_at 8.850807889
AFFX-CreX-3_at 12.26055816
AFFX-CreX-5_at 11.39262619
AFFX-DapX-3_at 1.982450622
AFFX-DapX-5_at 3.076730665
AFFX-DapX-M_at 2.202869058
AFFX-Dr-AB076373-1_at 2.735303219
AFFX-Dr-acta1-3_at 5.904850946
AFFX-Dr-acta1-5_at 5.304168898
AFFX-Dr-acta1-5_x_at 5.810649596
AFFX-Dr-acta1-M_at 4.727788148
AFFX-Dr-AF292559-1_at 2.015347413
AFFX-Dr-AF292559-2_s_at 1.76717326
AFFX-Dr-AF292559-3_s_at 1.872674641

Total number of rows: 15617

Table truncated, full table size 436 Kbytes.

Supplementary file Size Download File type/resource
GSM324903.CEL.gz 2.0 Mb (ftp)(http) CEL
Raw data provided as supplementary file
Processed data included within Sample table

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