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Sample GSM539987 Query DataSets for GSM539987
Status Public on Sep 01, 2010
Title DEHP, rep4
Sample type RNA
 
Source name 2-day-old rat hearts, DEHP
Organism Rattus norvegicus
Characteristics strain: Sprague-Dawley
tissue: heart
age: 2 days
treatment: DEHP
treatment dosage: 50 ug/ml
treatment time: 3 days
Treatment protocol Cells were treated for 3 days with either 50ug/mL DEHP (in 0.1% DMSO) or with vehicle control (0.1% DMSO).
Growth protocol Cardiomyocytes isolated from 2-day-old Sprague-Dawley rat pups using an enzymatic digestion protocol. Cells were plated on laminated coverslips. Cells were cultured for 3 days prior to treatment.
Extracted molecule total RNA
Extraction protocol RNA was extracted from cell monolayers using TRIzol reagent (Invitrogen) and total RNA was purified using RNeasy columns (Qiagen) according to manufacturer's protocols.
Label biotin
Label protocol Biotinylated cRNA was generated according to the standard Affymetrix protocol from 5 ug of total RNA (GeneChip Expression Analysis Technical Manual; Affymetrix).
 
Hybridization protocol Following fragmentation, 15 ug of cRNA was hybridized for 16 hr at 45C on the Rat 1.0 ST arrays. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
Scan protocol GeneChips were scanned using the Affymetrix GeneChip Scanner 3000.
Description Gene expression data from cardiomyocyte monolayers treated with DEHP, 3 days.
Data processing Data was exported from Affymetrix software (CEL files). Analysis was conducted using GeneSpring GX10. The GeneSpring software performed a baseline transformation, which takes the median of all samples. Quantile normalization (RMA) and summarization were then performed.
 
Submission date May 03, 2010
Last update date May 17, 2010
Contact name Nikki Gillum Posnack
E-mail(s) nposnack@childrensnational.org
Phone 202-4762475
Organization name Childrens National Hospital
Lab Posnack
Street address 111 Michigan Ave, NW
City Washington
State/province Please select a region, state or province.
ZIP/Postal code 20010
Country USA
 
Platform ID GPL6247
Series (2)
GSE21640 Gene expression analysis of cardiomyocytes treated with a clinically relevant concentration of DEHP (50 ug/mL)
GSE21642 Genome-wide gene expression analysis of Di-(2-ethyl hexyl) phthalate-treated cardiomyocytes

Data table header descriptions
ID_REF
VALUE non-log RMA signal

Data table
ID_REF VALUE
10857452 0.974999457
10706105 0.952752187
10831452 1.099242661
10843838 0.935715839
10829209 1.5012681
10718001 1.076791943
10792592 0.946610067
10789059 1.001356375
10838451 1.008166561
10775519 1.349975149
10847600 0.943027596
10762238 0.991471196
10762231 1.062688294
10758771 1.03916084
10762254 0.920921902
10763149 0.981899394
10854437 1.061716862
10738209 0.953042571
10875631 1.249768601
10870567 0.769132489

Total number of rows: 27342

Table truncated, full table size 557 Kbytes.




Supplementary file Size Download File type/resource
GSM539987.CEL.gz 3.9 Mb (ftp)(http) CEL
Processed data included within Sample table

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