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Sample GSM980669 Query DataSets for GSM980669
Status Public on Sep 04, 2012
Title Kidney D Lgr5 neg
Sample type RNA
Source name FACS-sorted cells from cultured embryonic kidneys from Lgr5-EGFP-Ires-CreERT2 mice, Lgr5 negative
Organism Mus musculus
Characteristics strain: B6.129P2-Lgr5tm1(cre/ERT2)Cle/J
tissue: embryonic kidney
lgr5 expression level: negative
Treatment protocol Embryonic kidneys were identified by fluorescence microscopy and enzymatically digested to a single cell solution using TrypLE (Sigma Aldrich) and DNase.
Growth protocol Murine embryonic kidneys were isolated and cultured as previously described (Giuliani, Journal of Urology 2008 (PMID 18006007)).
Extracted molecule total RNA
Extraction protocol Total RNA was extracted using the RNeasy Mini Kit (Qiagen) following the manufacturer's instructions.
Label biotin
Label protocol WT labeling kit (
Hybridization protocol Biotin terminal labeled sense strand DNA was generated from 100 ng total RNA using the Ambion WT Expression Kit (Applied Biosytems, 4425209 Rev. C), followed by end labeling using the Affymetrix GeneChip WT Terminal Labeling Kit conforming to the manufacturer's instructions (P/N 702808 Rev. 4). Final yields were measured using a Nanodrop 1000 (v.3.8.0, Thermo Scientific). The labeled samples were hybridized on Affymetrix Mouse Gene 1.1 ST arrays using a GeneChip Hybridisation Oven 640. Chips were labeled and washed usingĀ  the GeneChip Hybridisation, Wash, and Stain Kit (Affymetrix) in a GeneChip Fluidics Station 450 (P/N 08-0092).
Scan protocol Scanning was performed using a GeneChip Scanner 3000 7G conforming to the manufacturer's instructions (P/N 702731).
Description ext394
Lgr5ki_GFP-negative 2.
Data processing AffyPowerTools-rma-sketch.
Submission date Aug 03, 2012
Last update date Sep 04, 2012
Contact name Richard Volckmann
Organization name Academic Medical Centre, University of Amsterdam
Department Department of Oncogenomics
Street address P.O. Box 22700
City Amsterdam
ZIP/Postal code 1100DE
Country Netherlands
Platform ID GPL11533
Series (1)
GSE39881 Lgr5+ve stem cells in nephrogenesis

Data table header descriptions
VALUE Log2 RMA signal intensity

Data table
10338001 10.5948844
10338002 3.572889668
10338003 8.447083226
10338004 5.375039431
10338005 2.292781749
10338006 2.459431619
10338007 2.5360529
10338008 2.722466024
10338009 5.602884409
10338010 2.321928095
10338011 3.336283388
10338012 2.378511623
10338013 2.169925001
10338014 2.232660757
10338015 2.169925001
10338016 4.548436625
10338017 12.20625127
10338018 3.916476644
10338019 3.070389328
10338020 5.236492618

Total number of rows: 35556

Table truncated, full table size 722 Kbytes.

Supplementary file Size Download File type/resource
GSM980669_EXT394.CEL.gz 4.7 Mb (ftp)(http) CEL
Processed data included within Sample table

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