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Sample GSM474499 Query DataSets for GSM474499
Status Public on Mar 01, 2010
Title human_LIMA_artery_patient4_control
Sample type RNA
 
Source name Human LIMA artery from patient 4, control (unstented)
Organism Homo sapiens
Characteristics gender: male
individual: patient 4
treatment: control
Treatment protocol Thereafter, a bare metal stent (Express2, 2.5 x 16 mm stent, Boston Scientific Corporation, MA, USA) was implanted (1 min, 10 bar) into one of the three LIMA pieces and a paclitaxel-eluting stent (TAXUS Express2 2.5 x 16 mm stent, Boston Scientific Corporation, MA, USA) was implanted into another. The third part was left as unstented control. Forty-eight hours post stent implantation, the stents were removed and the LIMA samples snap frozen in liquid nitrogen.
Growth protocol As part of elective Coronary Artery Bypass Graft Surgery procedures performed at Lund University Hospital, Sweden, tissues containing parts of the LIMA from four coronary artery bypass graft (CABG) patients (68-73 year old males with stable angina and 3-vessel coronary atheroslerosis, two had hypertension, none were diabetic) were collected and stored in DMEM low glucose at 4C. Each LIMA (n=4) was dissected free of surrounding tissues, cut into three equal parts and incubated under tissue culture conditions in serum-free DMEM. All LIMA vessel segments were approximately 2 mm in diameter. The vessel segments were incubated for 24 h to induce quiescence.
Extracted molecule total RNA
Extraction protocol Tissues were homogenized in TRIzol and RNA purified as described in Amisten et al 2008 (PMID 17920662).
Label biotin
Label protocol Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 1 ug total RNA (Expression Analysis Technical Manual, 2006, Affymetrix).
 
Hybridization protocol Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Human Hu133Plus2.0 Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
Scan protocol GeneChips were scanned using the Hewlett-Packard GeneArray Scanner G2500A.
Description stable angina and 3-vessel coronary atheroslerosis
Data processing The data were analyzed with Expression Console ver.1 using Affymetrix default analysis settings followed by MAS5 as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 100.
 
Submission date Nov 23, 2009
Last update date Nov 23, 2009
Contact name Ann-Sofie Albrekt
E-mail(s) ann-sofie.albrekt@immun.lth.se
Phone +46462229818
Organization name Lund University
Street address Solvegatan 19
City Lund
ZIP/Postal code 22184
Country Sweden
 
Platform ID GPL570
Series (1)
GSE19136 Gene expression response to implanted drug (paclitaxel)-eluting or bare metal stents in denuded human LIMA arteries

Data table header descriptions
ID_REF
VALUE MAS5.0 signal intensity

Data table
ID_REF VALUE
AFFX-BioB-5_at 241.5755
AFFX-BioB-M_at 407.7976
AFFX-BioB-3_at 220.3214
AFFX-BioC-5_at 675.0792
AFFX-BioC-3_at 789.1149
AFFX-BioDn-5_at 1479.724
AFFX-BioDn-3_at 3090.12
AFFX-CreX-5_at 8154.922
AFFX-CreX-3_at 9621.605
AFFX-DapX-5_at 163.0255
AFFX-DapX-M_at 294.5075
AFFX-DapX-3_at 458.7456
AFFX-LysX-5_at 17.71781
AFFX-LysX-M_at 38.23298
AFFX-LysX-3_at 88.60722
AFFX-PheX-5_at 24.62079
AFFX-PheX-M_at 66.78375
AFFX-PheX-3_at 63.87012
AFFX-ThrX-5_at 40.30387
AFFX-ThrX-M_at 55.6704

Total number of rows: 54675

Table truncated, full table size 1055 Kbytes.




Supplementary file Size Download File type/resource
GSM474499.CEL.gz 7.9 Mb (ftp)(http) CEL
Raw data provided as supplementary file
Processed data included within Sample table

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