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Sample GSM1111500 Query DataSets for GSM1111500
Status Public on Mar 24, 2014
Title E15.5Six2GFP+S1
Sample type RNA
Source name embryonic kidney
Organism Mus musculus
Characteristics strain: hybrid of 129 and C57BL/6
tissue: kidney
cell type: nephron progenitor
genotype/variation: Six2GFP(+)
age: E15.5
Treatment protocol Six2GFP E15.5 kidneys were disected and washed with PBS. Then FACS sorting was performed to select the GFP(+) cells and the GFP(-) cells.
Extracted molecule total RNA
Extraction protocol RNA was prepared using the Trizol reagent (Life Technologies) following the manufacturer's recommendations. RNA was quantified using a NanoDrop-1000 spectrophotometer and quality was monitored with the Agilent 2100 Bioanalyzer (Agilent Technologies, Santa Clara, CA).
Label Cy3
Label protocol Agilent one-color Low RNA Fluorecent Liner Amplification kit labeling protocol. Cyanine-3 (Cy3) labeled cRNA was prepared from 0.25 ug RNA according to the manufacturer's instructions. Dye incorporation and cRNA yield were checked with the NanoDrop Spectrophotometer.
Hybridization protocol Agilent one-color gene expression hyb/wash protocol. 1.65 ug of Cy3 labeled RNA was hybridized to Agilent Whole Mouse Genome microarrays (4 x 44K: GPL10333) at 60C for 17 hours and subsequently washed according to the Agilent standard hybridization protocol.
Scan protocol Microarray slides were scanned in an Agilent Technologies G2539A Microarray Scanner at 5 micron resolution. Images were quantified using Agilent Feature Extraction software
Description gene expression after tamoxifen treatment
Data processing 75 Percentile Shift Normalization by using GeneSpring GX software (Agilent Technologies)
Submission date Apr 01, 2013
Last update date Mar 24, 2014
Contact name Ryuichi Nishinakamura
Phone +81-96-373-6615
Fax +81-96-373-6618
Organization name Kumamoto Univ.
Department IMEG
Lab kidney development
Street address Honjo 2-2-1
City Kumamoto
ZIP/Postal code 860-0811
Country Japan
Platform ID GPL11202
Series (2)
GSE45664 Six2GFPE15.5 110309
GSE45845 Sall1 co-operated with Six2 to actively maintain nephron progenitors in the embryonic kidney

Data table header descriptions
VALUE Normalized signal intensity

Data table
GE_BrightCorner 34220.57
DarkCorner 25.34
A_55_P1989846 131.35
A_55_P1991598 6.74
A_55_P2022211 18082.29
A_55_P1980764 80.81
A_55_P1964375 4018.21
A_51_P128876 1336.63
A_55_P2121042 5.79
A_52_P219230 3.21
A_51_P207591 41.97
A_55_P2131920 84.34
A_55_P2404223 180.06
A_55_P2101944 27624.44
A_52_P358860 659.36
A_51_P119031 2041.91
A_51_P309854 18.6
A_51_P343900 19892.45
A_51_P234359 4615.6
A_51_P487813 2786.25

Total number of rows: 39485

Table truncated, full table size 777 Kbytes.

Supplementary file Size Download File type/resource
GSM1111500_E15.5Six2GFP+S1.txt.gz 8.8 Mb (ftp)(http) TXT
Processed data included within Sample table

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