Gene expression analysis of livers from female B6C3F1 mice exposed to carcinogenic and non-carcinogenic doses of furan, with or without bromodeoxyuridine (BrdU) treatment

Genomics Data

Volumn 2, Issue , 2014, Pages 117-122

  Webster, Anna Francina ^a,b   Williams, Andrew ^a   Recio, Leslie ^c   Yauk, Carole L ^a  

^a HEALTH CANADA   (Canada)

^b CARLETON UNIVERSITY   (Canada)

^c ILS   (United States)

Author keywords

Dose response; Furan; Liver cancer; Microarray; Statistical analysis in R

Indexed keywords

BROXURIDINE; FURAN; LONG UNTRANSLATED RNA;

ANIMAL EXPERIMENT; ANIMAL MODEL; ANIMAL TISSUE; ARTICLE; AUTOPSY; BOOTSTRAPPING; CARCINOGENIC ACTIVITY; CLUSTER ANALYSIS; CONTROLLED STUDY; FEMALE; GENE EXPRESSION; GENE EXPRESSION ANALYSIS; GENOMICS; LIVER; MICROARRAY ANALYSIS; MOUSE; MRNA EXPRESSION ASSAY; NONHUMAN; NUCLEIC ACID ANALYSIS; NUCLEOTIDE SEQUENCE; RNA HYBRIDIZATION; SPECTROPHOTOMETRY;

MUS;

EID: 84920602930     PISSN: 22135960     EISSN: None     Source Type: Journal    
DOI: 10.1016/j.gdata.2014.05.013     Document Type: Article

References (13)

1. Benjamini Y., Hochberg Y. Controlling the false discovery rate: a practical and powerful approach to multiple testing. J. R. Stat. Soc. Ser. B Methodol. 1995, 57(1):289-300. (289).
2. Bolstad B.M., Irizarry R.A., Åstrand M., Speed T.P. A comparison of normalization methods for high density oligonucleotide array data based on variance and bias. Bioinformatics 2003, 19(2):185-193. 10.1093/bioinformatics/19.2.185.
3. Cui X., Hwang J.T., Qiu J., Blades N.J., Churchill G.A. Improved statistical tests for differential gene expression by shrinking variance components estimates. Biostatistics (Oxford, England) 2005, 6(1):59-75.
4. Gautier L., Cope L., Bolstad B.M., Irizarry R.A. Affy - analysis of affymetrix GeneChip data at the probe level. Bioinformatics 2004, 20(3):307-315. 10.1093/bioinformatics/btg405.
5. Jackson A.F., Williams A., Recio L., Waters M.D., Lambert I.B., Yauk C.L. Case study on the utility of hepatic global gene expression profiling in the risk assessment of the carcinogen furan 2014, 10.1016/j.taap.2013.10.019.
6. James W., Stein C. Estimation with quadratic loss. Proceedings of the Fourth Berkeley Symposium on Mathematical Statistics and Probability: Contributions to the Theory of Statistics, Berkeley, California, USA. 1961, 1:361-379. (361).
7. R-Core-Development-Team R: a language and environment for statistical computing 2012, R Foundation for Statistical Computing, Vienna, Austria.
8. Recio L., Phillips S.L., Maynor T., Waters M., Jackson A.F., Yauk C.L. Differential expression of long non-coding RNAs in the livers of female B6C3F1 mice exposed to the carcinogen furan. Toxicol. Sci. 2013, 10.1093/toxsci/kft153.
9. Wu H., Kerr K.K., Cui X., Churchill G.A. MAANOVA: a software package for the analysis of spotted cDNA microarray experiments 2003.
10. Yang Y.H., Dudoit S., Luu P., Lin D.M., Peng V., Ngai J., Speed T.P. Normalization for cDNA microarray data: a robust composite method addressing single and multiple slide systematic variation. Nucleic Acids Res. 2002, 30(4).
11. Webster A.F., Williams A., Recio L., Yauk C.L. Bromodeoxyuridine (BrdU) treatment to measure hepatocellular proliferation does not mask furan-induced gene expression changes in mouse liver. Toxicology June 2014, 10.1016/j.tox.2014.06.002.
12. Irizarry R.A., Hobbs B., Collin F., Beazer-Barclay Y.D., Antonellis K.J., Scherf U., Speed T.P. Exploration, normalization, and summaries of high density oligonucleotide array probe level data. Biostatistics (Oxford, England) 2003, 4(2):249-264. 10.1093/biostatistics/4.2.249.
13. Francina Webster Anna, Williams Andrew, Recio Leslie, Yauk Carole L Gene expression analysis of livers from female B6C3F1 mice exposed to carcinogenic and non-carcinogenic doses of furan, with or without 5 days Bromodeoxyuridine (BrdU) treatment. Toxicology June 2014, 10.1016/j.tox.2014.06.002.