title: Some comments on instability of false discovery rate estimation.
abstract: Some extended false discovery rate (FDR) controlling multiple testing procedures rely heavily on empirical estimates of the FDR constructed from gene expression data. Such estimates are also used as performance indicators when comparing different methods for microarray data analysis. The present communication shows that the variance of the proposed estimators may be intolerably high, the correlation structure of microarray data being the main cause of their instability.
authors.affiliation: Department of Biostatistics and Computational Biology, University of Rochester, 601 Elmwood Avenue, Box 630, Rochester, New York 14642, USA. xqiu@bst.rochester.edu
authors.forename: Xing
authors.initials: X
authors.lastname: Qiu
authors.forename: Andrei
authors.initials: A
authors.lastname: Yakovlev
mesh_terms: D000465:Algorithms; D014408:Biomarkers, Tumor / Q000378:metabolism*; D003627:Data Interpretation, Statistical; D003936:Diagnosis, Computer-Assisted / Q000379:methods*; D005189:False Positive Reactions; D020869:Gene Expression Profiling / Q000379:methods; D006801:Humans; D007938:Leukemia / Q000175:diagnosis* / Q000378:metabolism*; D009363:Neoplasm Proteins / Q000378:metabolism*; D020411:Oligonucleotide Array Sequence Analysis / Q000379:methods*; D015203:Reproducibility of Results; D012680:Sensitivity and Specificity
chemical_list: D014408:Biomarkers, Tumor; D009363:Neoplasm Proteins