| Titre : | Detecting differentially expressed genes in heterogeneous diseases using half Student's t-test. (2010) |
| Auteurs : | Chun-Lun HSU ; Wen-Chung LEE ; Research Centre for Genes Environment and Human Health. Graduate Institute of Epidemiology. College of Public Health. National Taiwan University. Taipei. TWN |
| Type de document : | Article |
| Dans : | International journal of epidemiology (vol. 39, n° 6, 2010) |
| Pagination : | 1597-1604 |
| Langues: | Anglais |
| Mots-clés : | Gène ; Pathologie ; Homme ; Epidémiologie ; Méthodologie ; Génétique |
| Résumé : | [BDSP. Notice produite par INIST-CNRS qDr9R0xr. Diffusion soumise à autorisation]. Background Microarray technology provides information about hundreds and thousands of gene-expression data in a single experiment. To search for disease-related genes, researchers test for those genes that are differentially expressed between the case subjects and the control subjects. Methods The authors propose a new test, the'half Student's t-test'specifically for detecting differentially expressed genes in heterogeneous diseases. Monte-Carlo simulation shows that the test maintains the nominal alpha level quite well for both normal and non-normal distributions. Power of the half Student's t is higher than that of the conventional'pooled'Student's t when there is heterogeneity in the disease under study. The power gain by using the half Student's t can reach 10% when the standard deviation of the case group is 50% larger than that of the control group. Results Application to a colon cancer data reveals that when the false discovery rate (FDR) is controlled at 0.05, the half Student's t can detect 344 differentially expressed genes, whereas the pooled Student's t can detect only 65 genes. Or alternatively, if only 50 genes are to be selected, the FDR for the pooled Student's t has to be set at 0.0320 (false positive rate of 3%), but for the half Student's t, it can be at as low as 0.0001 (false positive rate of about one per ten thousands). Conclusions The half Student's t-test is to be recommended for the detection of differentially expressed genes in heterogeneous diseases. |
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