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Sample GSM324906 Query DataSets for GSM324906
Status Public on Oct 10, 2008
Title zMP2
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 7.758887631
AFFX-BioB-5_at 8.320063545
AFFX-BioB-M_at 8.22941917
AFFX-BioC-3_at 8.805025109
AFFX-BioC-5_at 8.920839907
AFFX-BioDn-3_at 11.47067308
AFFX-BioDn-5_at 9.957625648
AFFX-CreX-3_at 12.55290821
AFFX-CreX-5_at 12.06048198
AFFX-DapX-3_at 2.176307381
AFFX-DapX-5_at 3.218493362
AFFX-DapX-M_at 2.681831053
AFFX-Dr-AB076373-1_at 3.938688629
AFFX-Dr-acta1-3_at 5.897608667
AFFX-Dr-acta1-5_at 6.104497848
AFFX-Dr-acta1-5_x_at 6.328587564
AFFX-Dr-acta1-M_at 3.732823452
AFFX-Dr-AF292559-1_at 2.366424053
AFFX-Dr-AF292559-2_s_at 1.978838465
AFFX-Dr-AF292559-3_s_at 1.627324971

Total number of rows: 15617

Table truncated, full table size 436 Kbytes.

Supplementary file Size Download File type/resource
GSM324906.CEL.gz 1.9 Mb (ftp)(http) CEL
Raw data provided as supplementary file
Processed data included within Sample table

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