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Sample GSM672159 Query DataSets for GSM672159
Status Public on Dec 31, 2015
Title HK-2 cells, Kbr, hd and ld, t48h, control sample, biological rep 3, Tox2
Sample type RNA
 
Source name Human renal proximal tubular epithelial cells, control for Kbr, hd and ld, t48h
Organism Homo sapiens
Characteristics cell line: HK-2
cell type: immortalized human renal proximal tubular epithelial cells
treatment: control
treatment duration: 48 hrs
Treatment protocol Cells were seeded 24 hours before treatment on Greiner 6-well plates at a density of 7x10^5 cells per well with 2mls of medium per well. Cells were treated at ~90% confluency with the required doses for the required timepoints. Control cells were exposed to an appropriate concentration of the control vehicle.
Growth protocol HK-2 cells were maintained in a 1-1 mixture of DMEM and Ham'sF12 containing 5 mM glucose supplemented with 10 ng/ml human recombinant EGF, 36 ng/ml hydrocortisone, 5 µg/ml bovine insulin, 5 µg/ml human transferrin, 5 ng/ml sodium selenite, 2 mM Glutamax (Gibco), 100 U/ml penicillin and 100 µg/ml streptomycin.
Extracted molecule total RNA
Extraction protocol Total RNA was isolated using the Qiagen RNeasy mini kit.
Label biotin
Label protocol Biotinylated cRNA were prepared according to the standard Affymetrix protocol.
 
Hybridization protocol 15 ug fragmented labelled cRNA was hybridized for 16 hours at 45oC to Affymetrix HGU133_Plus 2.0 GeneChips, which were then stained and washed on an Affymetrix Fluidics Station 400.
Scan protocol Fluorescence was read with an Affymetrix 3000 Scanner.
Description Kbr-hd_and_ld-t48h_ctrl-rep-3
Data processing Data was normalized using the gcrma library (version 2.8.1) of Bioconductor.
 
Submission date Feb 09, 2011
Last update date Dec 31, 2015
Contact name Peadar O'Gaora
Organization name UCD
Street address Belfield
City Dublin
ZIP/Postal code Dublin 4
Country Ireland
 
Platform ID GPL570
Series (2)
GSE27204 Expression data in HK-2 cells following exposure to Tox 2 compounds: CdCl, Di, and Kbr
GSE27211 Gene expression changes in HK-2 cells following exposure to nephrotoxic compounds

Data table header descriptions
ID_REF
VALUE Log2 gcrma signal

Data table
ID_REF VALUE
1007_s_at 9.688584401
1053_at 9.415411116
117_at 2.844972912
121_at 10.23318419
1255_g_at 2.244384229
1294_at 3.046206437
1316_at 2.783817454
1320_at 2.787845737
1405_i_at 3.107654351
1431_at 2.716005316
1438_at 1.938824522
1487_at 7.064061314
1494_f_at 2.182112477
1552256_a_at 8.279346883
1552257_a_at 8.625152103
1552258_at 2.465858859
1552261_at 2.672568805
1552263_at 5.310032986
1552264_a_at 9.131286188
1552266_at 3.160114463

Total number of rows: 54675

Table truncated, full table size 1212 Kbytes.




Supplementary file Size Download File type/resource
GSM672159_ba_c_48h_ctrl_nc09.cel.gz 4.8 Mb (ftp)(http) CEL
Processed data included within Sample table

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