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Sample GSM324905 Query DataSets for GSM324905
Status Public on Oct 10, 2008
Title zMP1
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 7.310803024
AFFX-BioB-5_at 7.943908979
AFFX-BioB-M_at 7.84273732
AFFX-BioC-3_at 8.413175627
AFFX-BioC-5_at 8.624582361
AFFX-BioDn-3_at 11.13168961
AFFX-BioDn-5_at 9.543852475
AFFX-CreX-3_at 12.19350351
AFFX-CreX-5_at 11.66596671
AFFX-DapX-3_at 2.343351146
AFFX-DapX-5_at 3.101674578
AFFX-DapX-M_at 2.358460483
AFFX-Dr-AB076373-1_at 3.659962677
AFFX-Dr-acta1-3_at 5.879921982
AFFX-Dr-acta1-5_at 6.398016462
AFFX-Dr-acta1-5_x_at 6.233411192
AFFX-Dr-acta1-M_at 3.480440485
AFFX-Dr-AF292559-1_at 2.251338498
AFFX-Dr-AF292559-2_s_at 1.965422425
AFFX-Dr-AF292559-3_s_at 1.728440529

Total number of rows: 15617

Table truncated, full table size 436 Kbytes.

Supplementary file Size Download File type/resource
GSM324905.CEL.gz 1.9 Mb (ftp)(http) CEL
Raw data provided as supplementary file
Processed data included within Sample table

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