Elimination of laboratory ozone leads to a dramatic improvement in the reproducibility of microarray gene expression measurements

BMC Biotechnology

Volumn 7, Issue , 2007, Pages

  Branham, William S ^a   Melvin, Cathy D ^a   Han, Tao ^a   Desai, Varsha G ^a   Moland, Carrie L ^a   Scully, Adam T ^b   Fuscoe, James C ^a  

^a CENTER FOR DRUG EVALUATION AND RESEARCH   (United States)

^b NATIONAL CENTER FOR TOXICOLOGICAL RESEARCH   (United States)

Author keywords

[No Author keywords available]

Indexed keywords

CARBON FILTER; CYANINE; LABORATORY OZONE; MICROARRAY GENE EXPRESSION;

CLINICAL LABORATORIES; FILTRATION; GENE EXPRESSION; MICROARRAYS; OZONE;

GENETIC ENGINEERING;

CARBON; CYANINE DYE 3; CYANINE DYE 5; OZONE;

ACCURACY; AIRFLOW; ARTICLE; CONTROLLED STUDY; FILTER; GENE EXPRESSION; GENETIC ANALYSIS; HUMIDITY; LABORATORY; METEOROLOGY; MICROARRAY ANALYSIS; REPRODUCIBILITY; SEASONAL VARIATION; UNITED STATES;

ANIMALS; ARTIFACTS; CARBOCYANINES; FLUORESCENCE; GENE EXPRESSION PROFILING; LABORATORIES; MICE; OLIGONUCLEOTIDE ARRAY SEQUENCE ANALYSIS; OZONE; REPRODUCIBILITY OF RESULTS;

EID: 33847221847     PISSN: None     EISSN: 14726750     Source Type: Journal    
DOI: 10.1186/1472-6750-7-8     Document Type: Article

References (10)

1. Bammler T Beyer RP Bhattacharya S Boorman GA Boyles A Bradford BU Bumgarner RE Bushel PR Chaturvedi K Choi D Standardizing global gene expression analysis between laboratories and across platforms Nat Methods 2005 2 5 351-356 10.1038/nmeth754 15846362
2. Draghici S Khatri P Eklund AC Szallasi Z Reliability and reproducibility issues in DNA microarray measurements Trends Genet 2006 22 2 101-109 10.1016/j.tig.2005.12.005 16380191
3. Imbeaud S Auffray C 'The 39 steps' in gene expression profiling: critical issues and proposed best practices for microarray experiments Drug Discov Today 2005 10 17 1175-1182 10.1016/S1359-6446(05)03565-8 16182210
4. Fare TL Coffey EM Dai H He YD Kessler DA Kilian KA Koch JE LeProust E Marton MJ Meyer MR Effects of atmospheric ozone on microarray data quality Anal Chem 2003 75 17 4672-4675 10.1021/ac034241b 14632079
5. U.S. EPA http://www.epa.gov/epahome/ozone.htm
6. Arkansas Department of Environmental Quality http://www.adeq.state.ar.us/ techsvs/dailyaqidata.asp
7. Shi L Tong W Goodsaid F Frueh FW Fang H Han T Fuscoe JC Casciano DA QA/ QC: Challenges and pitfalls facing the microarray community and regulatory agencies Expert Review of Molecular Diagnostics 2004 4 6 761-777 10.1586/14737159.4.6.761 15525219
8. Yang YH Dudoit S Luu P Lin DM Peng V Ngai J Speed TP Normalization for cDNA microarray data: A robust composite method addressing single and multiple slide systematic variation Nucleic Acids Res 2002 30 4 e15 100354 11842121 10.1093/nar/30.4.e15
9. Han T Melvin CD Shi L Branham WS Moland CL Pine PS Thompson KL Fuscoe JC Improvement in the Reproducibility and Accuracy of DNA Microarray Quantification by Optimizing Hybridization Conditions BMC Bioinformatics 2006 7 Suppl 2 S17 1683572 17118138 10.1186/1471-2105-7-S2-S17
10. Tong W Cao X Harris S Sun H Fang H Fuscoe J Harris A Hong H Xie Q Perkins R ArrayTrack - supporting toxicogenomic research at the U.S. Food and Drug Administration National Center for Toxicological Research Environ Health Perspect 2003 111 15 1819-1826 1241745 14630514