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Sample GSM671562 Query DataSets for GSM671562
Status Public on Dec 31, 2015
Title HK-2 cells, Di, t48h, biological rep 2
Sample type RNA
 
Source name Human renal proximal tubular epithelial cells, treated with Di, t48h
Organism Homo sapiens
Characteristics cell line: HK-2
cell type: immortalized human renal proximal tubular epithelial cells
treatment: Di
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 Di-t48h-rep-2
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)
GSE27170 Expression data in HK-2 cells following exposure to Di
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 8.333376559
1053_at 8.006502246
117_at 4.509626292
121_at 9.19111092
1255_g_at 2.394469423
1294_at 2.325148811
1316_at 2.862870596
1320_at 3.658535372
1405_i_at 3.254546162
1431_at 2.814360148
1438_at 2.14332552
1487_at 6.654139408
1494_f_at 2.199618587
1552256_a_at 6.931515633
1552257_a_at 6.709339052
1552258_at 2.531691274
1552261_at 2.682868014
1552263_at 5.597338726
1552264_a_at 8.306137811
1552266_at 3.292626942

Total number of rows: 54675

Table truncated, full table size 1212 Kbytes.




Supplementary file Size Download File type/resource
GSM671562_In_Di_48h_2b.CEL.gz 4.7 Mb (ftp)(http) CEL
Processed data included within Sample table

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