Noninferiority tests based on concordance correlation coefficient for assessment of the agreement for gene expression data from microarray experiments

Journal of Biopharmaceutical Statistics

Volumn 17, Issue 2, 2007, Pages 309-327

  Liao, Chen Tuo ^a   Lin, Chia Ying ^a   Liu, Jen Pei ^a,b  

^a NATIONAL TAIWAN UNIVERSITY   (Taiwan)

^b NATIONAL HEALTH RESEARCH INSTITUTES   (Taiwan)

Author keywords

Agreement; Concordance correlation coefficient; Generalized pivotal quantity; Noninferiority

Indexed keywords

ARTICLE; CONFIDENCE INTERVAL; CORRELATION COEFFICIENT; DATA ANALYSIS; DNA MICROARRAY; GENE EXPRESSION PROFILING; HYPOTHESIS; MATHEMATICAL MODEL; PRIORITY JOURNAL; PROBABILITY; QUALITY CONTROL; QUANTITATIVE ANALYSIS; REPRODUCIBILITY; SIMULATION;

CONFIDENCE INTERVALS; DATA INTERPRETATION, STATISTICAL; GENE EXPRESSION PROFILING; MODELS, STATISTICAL; OLIGONUCLEOTIDE ARRAY SEQUENCE ANALYSIS; REPRODUCIBILITY OF RESULTS;

EID: 33947239458     PISSN: 10543406     EISSN: 15205711     Source Type: Journal    
DOI: 10.1080/10543400601177327     Document Type: Article

References (19)

1. Bland, J. M., Altman, D. G. (1986). Statistical methods for assessing agreement between two methods of clinical measurements. Lancet 1:307-310.
2. Dobbin, K. K., Beer, D. G., Myerson, M, Yeatman, T. J., Gerald, W. L., Jacobson, J. W. (2005). Interlaboratory comparability study pf cancer gene expression analysis using oligonucleotide. Clinical Cancer Research 11:565-572.
3. Members of the Toxicogenomics Research Consortium (2005). Standardizing global gene expression analysis between laboratories and across platforms. Nature Methods 2:351-356.
4. Ioannidis, J. P. A. (2005). Microarrays and molecular research: noise discovery. Lancet 365:454-455.
5. Irizarry, R. A., Warren, D., Spencer, F., Kim, I. F., Biswal, S., Frank, B. C. et al. (2005). Multi-laboratory comparison of microarray platforms. Nature Methods 2:345-349.
6. Larkin, J. E., Frank, B. C., Gavras, H., Sultana, R., Quackenbush, J. (2005). Independence and reproducibility across microarray platforms. Nature Methods 2:337-343.
7. Lin, L. I. (1989). A concordance correlation coefficient to evaluate reproducibility. Biometrics 45:255-268.
8. Lin, L. I. (1992). Assay validation using the concordance correlation coefficient. Biometrics 48:599-604.
9. Lin, L. I., Hedayat, A. S., Sinha, B., Yang, M. (2002). Statistical methods in assessing agreement: models, issues, and tools. Journal of the American Statistical Association 97:257-270.
10. Mathew, T., Webb, D. W. (2005). Generalized p values and confidence intervals for variance components: applications to army test and evaluation. Technometrics 47:312-322.
11. Michiels, S., Koscielny, S., Hill, C. (2005). Prediction of cancer outcome with microarrays: a multiple random validation strategy. Lancet 365:488-492.
12. MINDACT Design and MINDACT trial overview. http://www.breast/ internationalgroup.org/transbig.html. Accessed on June 5 2006.
13. Quiroz, J. (2004). Assessment of equivalence using a concordance correlation coefficient in a repeated measurements design. Journal of Biopharmaceutical Statistics 15:913-928.
14. Shi, L., Tong, W., Goodsaid, F., Frueh, F. W., Fang, H., Han, T., Fuscoe, J. C., Casciano, D. A. (2004). QA/QC: challenges and pitfalls facing the microarray community and regulatory agencies. Expert Review of Molecular Diagnosis 4:761-777.
15. Sprarano, J., Hayes, D, Dees, E. (2006). Phase III randomized study of adjuvant combination chemotherapy and hormonal therapy versus adjuvant hormonal therapy alone in women with previously resected axillary node-negative breast cancer with various levels of risk for recurrence (TAILORX Trial). http://www.cancer.gov/clinicaltrials/ECOGPACCT-1. Accessed on June 5 2006.
16. Tan, P. K., Downey, T. J., Spitznagel, E. L., Xu, P., Fu, D., Dimitrov, D. S., Lempick, R. A., Raaka, B. M., Cam, M. C. (2003). Evaluation of gene expression measurements from commercial microarray platforms. Nucleic Acids Research 31:5676-5684.
17. The U.S. Food and Drug Administration (2006). Draft Guidance on In Vitro Diagnostic Multivariate Index Assays. http://www.fda.gov./cdrh/ovid/guidance/ 1610. pdf. Accessed on September 30, 2006.
18. Weerahandi, S. (1993). Generalized confidence intervals. Journal of the American Statistical Association 88:899-905.
19. Weerahandi, S. (1995). Exact Statistical Methods for Data Analysis. New York: Spring-Verlag.