Conservative adjustment of permutation p-values when the number of permutations is limited

International Journal of Bioinformatics Research and Applications

Volumn 3, Issue 4, 2007, Pages 536-546

  Lai, Yinglei ^a  

^a GEORGE WASHINGTON UNIVERSITY   (United States)

Author keywords

Bioinformatics; Microarray; Order statistics; P value; Permutation

Indexed keywords

ARTICLE; BIOINFORMATICS; DNA MICROARRAY; GENE EXPRESSION; PARAMETRIC TEST; SIMULATION; STATISTICAL ANALYSIS; ALGORITHM; BIOLOGICAL MODEL; BIOLOGY; COMPUTER; COMPUTER PROGRAM; COMPUTER SIMULATION; HUMAN; LABORATORY DIAGNOSIS; METHODOLOGY; STATISTICAL MODEL;

ALGORITHMS; COMPUTATIONAL BIOLOGY; COMPUTER SIMULATION; COMPUTERS; DATA INTERPRETATION, STATISTICAL; FALSE POSITIVE REACTIONS; HUMANS; LIKELIHOOD FUNCTIONS; MODELS, GENETIC; MODELS, STATISTICAL; OLIGONUCLEOTIDE ARRAY SEQUENCE ANALYSIS; SOFTWARE;

EID: 38449083096     PISSN: 17445485     EISSN: 17445493     Source Type: Journal    
DOI: 10.1504/IJBRA.2007.015420     Document Type: Article

References (9)

1. Adam, B-L., Qu, Y., Davis, J.W., Ward, M.D., Clements, M.A., Cazares, L.H., Semmes, O.J., Schellhammer, P.F., Yasui, Y., Feng, Z. and Wright Jr., G.L. (2002) 'Serum protein fingerprinting coupled with a pattern-matching algorithm distinguishes prostate cancer from benign prostate hyperplasia and healthy men', Cancer Research, Vol. 62, pp.3609-3614.
2. Balakrishnan, N. and Cohen, A.C. (1991) Order Statistics and Inference, Academic Press, Inc., San Diego, CA.
3. Benjamini, Y. and Hochberg, Y. (1995) 'Controlling the false discovery rate: a practical and powerful approach to multiple testing', Journal of the Royal Statistical Society, Series B, Vol. 57, pp.289-300.
4. Berger, V.W. (2000) 'Pros and cons of permutation tests in clinical trials', Statistics in Medicine, Vol. 19, pp.1319-1328.
5. Dudoit, S., Shaffer, J.P. and Boldrick, J.C. (2003) 'Multiple hypothesis testing in microarray experiments', Statistical Science, Vol. 18, pp.71-103.
6. Golub, T.R., Slonim, D.K., Tamayo, P., Huard, C., Gaasenbeek, M., Mesirov, J.P., Coller, H., Loh, M.L., Downing, J.R., Caligiuri, M.A., Bloomfield, C.D. and Lander, E.S. (1999) 'Molecular classification of cancer: class discovery and class prediction by gene expression monitoring', Science, Vol. 286, pp.531-537.
7. Hedenfalk, I., Duggan, D., Chen, Y., Radmacher, M., Bittner, M., Simon, R., Meltzer, P., Gusterson, B., Esteller, M., Kallioniemi, O.P., Wilfond, B., Borg, A. and Trent, J. (2001) 'Gene-expression profiles in hereditary breast cancer', New England Journal of Medicine, Vol. 344, pp.539-548.
8. Klebanov, L., Gordon, A., Xiao, Y., Land, H. and Yakovlev, A. (2006) 'A permutation test motivated by microarray data analysis', Computational Statistics and Data Analysis, Vol. 50, pp.3619-3628.
9. Storey, J.D. and Tibshirani, R. (2003) 'Statistical significance for genomewide studies', Proceedings of the National Academy of Sciences USA, Vol. 100, pp.9440-9445.