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Numerical comparisons across conditions for the same datasets were made using pairwise t-tests (with a significance level of 0.05).
Comparisons between microarray datasets were made using Microsoft Excel and Access.
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All causes of death assignments in this dataset were made using the InterVA-4 model version 4.02 (8).
Phylogenetic trees for the complete dataset were made using both neighbor-joining (1000 replicates, pairwise deletion, Tamura-Nei, in MEGA4) and parsimony (1000 replicates in Paup).
In addition to the three phylogenetic trees estimated from each of the WG, 3G and 3G-WG datasets, estimations were made using ML for alignments based on single gene regions from both the WG and 3G datasets.
For two nonnormal datasets, comparisons were made using the Mann-Whitney U test.
Dataset analysis and visualization were made using EASANA® (GenoSplice technology, http://www.genosplice.com), based on the GenoSplice's FAST DB® annotations.
SAS® version 9.1 (Cary, NC, USA) was used to create the datasets and analyze them; graphs were made using Microsoft Excel®.
In the Brisbane dataset, all tacrolimus concentration measurements were made using liquid chromatography-tandem mass spectrometry assay (LC-MS/MS) 24.
In cases where multiple tests were made using single datasets, alpha levels were adjusted using step-down sequential Bonferroni correction.
Dental microwear comparisons were made using a dataset [ 14] partitioned into the leaf browsing (n = 7), fruit browsing (n = 3), grazing (n = 7), mountain grazer (n = 1), seasonal (n = 6) and non-seasonal mixed feeder (n = 4) categories.
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