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Sample GSM671545 Query DataSets for GSM671545
Status Public on Dec 31, 2015
Title HK-2 cells, Aa, hd, t48h, control sample, biological rep 3
Sample type RNA
 
Source name Human renal proximal tubular epithelial cells, control for Aa, 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 Aa-hd-t48h_ctrl-rep-3
Data processing Data was normalized using the gcrma library (version 2.8.1) of Bioconductor.
 
Submission date Feb 08, 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)
GSE27168 Expression data in HK-2 cells following exposure to Aa_hd
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 9.91866376
1053_at 9.920491398
117_at 2.775957566
121_at 11.27824381
1255_g_at 2.077116601
1294_at 3.035488935
1316_at 2.850808318
1320_at 3.087676692
1405_i_at 2.784461685
1431_at 2.648952625
1438_at 1.944389723
1487_at 7.663422128
1494_f_at 2.156337479
1552256_a_at 8.823150392
1552257_a_at 8.898201738
1552258_at 2.446952057
1552261_at 2.787472222
1552263_at 4.529846778
1552264_a_at 9.669430988
1552266_at 3.052343929

Total number of rows: 54675

Table truncated, full table size 1212 Kbytes.




Supplementary file Size Download File type/resource
GSM671545_ba_c_48h_ctrl_nc08.cel.gz 4.8 Mb (ftp)(http) CEL
Processed data included within Sample table

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