E-GEOD-12353 - Gene expression profiles of human promyelocytic leukemia cell lines exposed to six volatile organic compounds

Status
Submitted on 5 August 2008, released on 8 August 2008, last updated on 3 May 2014
Organism
Homo sapiens
Samples (54)
Arrays (2)
Protocols (17)
Description
The gene expression profiles of HL-60 cells were determined for two doses (IC20 and IC50) of three chemicals (ethylbenzene, tricholoretylene and dichloromethane) and for the IC50 doses of 3 other chemicals (benzene, toluene and o-xylene) at a 3 h time point. Assays were performed in triplicate for each chemical/dose, and individual gene-expression profiles were determined for each chemical at the tested concentration doses. Gene expression analysis was conducted on the RNA samples using 35-K whole human genome microarray (Operon Biotechnologies, Inc. Germany). Three independent experiments were performed for each chemical (N = 6), simultaneously. Labeling and hybridization were performed using the instructions of the Platinum Biochip Reagent Kit (GenoCheck Co. Ltd., Korea). This was followed by the coupling of the Cy3 dye for the controls (DMSO) and Cy5 dye for the treated samples. Hybridization was performed in a hybridization oven at 62 oC for 12 h. After washing (2× SSC/0.1% SDS for 2 min at 58 oC, 1× SSC for 2 min at RT and 0.2× SSC for 3 min at RT), the slide was dried by centrifugation at 800 rpm for 3 min at RT. Hybridization images on the slides were scanned by ScanArray Lite (PerkinElmer Life Sciences, USA). Scanned images were analyzed with GenePix 3.0 software (Axon Instruments, USA) to obtain gene expression ratios.
Experiment type
transcription profiling by array 
Contacts
Sailendra Nath Sarma <sarma@kist.re.kr>, Jae-Chun Ryu, Sailendra N Sarma, Youn-Jung Kim
MIAME
PlatformsProtocolsVariablesProcessedRaw
Files
Investigation descriptionE-GEOD-12353.idf.txt
Sample and data relationshipE-GEOD-12353.sdrf.txt
Raw data (1)E-GEOD-12353.raw.1.zip
Processed data (1)E-GEOD-12353.processed.1.zip
Array designsA-GEOD-10048.adf.txt, A-GEOD-7080.adf.txt
R ExpressionSetE-GEOD-12353.eSet.r
Links