ArticleBMC bioinformatics2009
MultiTest V.1.2, a program to binomially combine independent tests and performance comparison with other related methods on proportional data.
Article in BMC bioinformatics, 2009. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 24 papers, 1 of them a synthesis that pooled it.
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24 citing papers in PubMed, 1 synthesis or guideline pooled it.
- Meta-analysis of gene-based genome-wide association studies of bone mineral density in Chinese and European subjects.Osteoporosis international : a journal established as result of cooperation between the European Foundation for Osteoporosis and the National Osteoporosis Foundation of the USA · 2012Pooled it
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- Gene flow and adaptive potential in a generalist ectoparasite.BMC evolutionary biology · 2018Article
- Comparison of different genetic distances to test isolation by distance between populations.Heredity · 2017Article
- Community structure, seasonal variations and interactions between native and invasive cattle tick species in Benin and Burkina Faso.Parasites & vectors · 2016Article
- Disentangle the Causes of the Road Barrier Effect in Small Mammals through Genetic Patterns.PloS one · 2016Article
- Mapping landscape friction to locate isolated tsetse populations that are candidates for elimination.Proceedings of the National Academy of Sciences of the United States of America · 2015Article
- Plague circulation and population genetics of the reservoir Rattus rattus: the influence of topographic relief on the distribution of the disease within the Madagascan focus.PLoS neglected tropical diseases · 2013Article
- Epidemiology of sleeping sickness in Boffa (Guinea): where are the trypanosomes?PLoS neglected tropical diseases · 2012Article
- Multifaceted population structure and reproductive strategy in Leishmania donovani complex in one Sudanese village.PLoS neglected tropical diseases · 2011Article
- Population genetics of Glossina palpalis palpalis from central African sleeping sickness foci.Parasites & vectors · 2011Article
- Population genetics of Trypanosoma evansi from camel in the Sudan.PLoS neglected tropical diseases · 2011Article
- Contrasting population structures of two vectors of African trypanosomoses in Burkina Faso: consequences for control.PLoS neglected tropical diseases · 2011Article
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3 authors.
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Abstract
backgroundCombining multiple independent tests, when all test the same hypothesis and in the same direction, has been the subject of several approaches. Besides the inappropriate (in this case) Bonferroni procedure, the Fisher's method has been widely used, in particular in population genetics. This last method has nevertheless been challenged by the SGM (symmetry around the geometric mean) and Stouffer's Z-transformed methods that are less sensitive to asymmetry and deviations from uniformity of the distribution of the partial P-values. Performances of these different procedures were never compared on proportional data such as those currently used in population genetics.
resultsWe present new software that implements a more recent method, the generalised binomial procedure, which tests for the deviation of the observed proportion of P-values lying under a chosen threshold from the expected proportion of such P-values under the null hypothesis. The respective performances of all available procedures were evaluated using simulated data under the null hypothesis with standard P-values distribution (differentiation tests). All procedures more or less behaved consistently with approximately 5% significant tests at alpha = 0.05. Then, linkage disequilibrium tests with increasing signal strength (rate of clonal reproduction), known to generate highly non-standard P-value distributions are undertaken and finally real population genetics data are analysed. In these cases, all procedures appear, more or less equally, very conservative, though SGM seems slightly more conservative.
conclusionBased on our results and those discussed in the literature we conclude that the generalised binomial and Stouffer's Z procedures should be preferred and Z when the number of tests is very small. The more conservative SGM might still be appropriate for meta-analyses when a strong publication bias in favour of significant results is expected to inflate type 2 error.
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