Sentence examples for datasets was conducted using from inspiring English sources
Statistical testing of the various datasets was conducted using IBM SPSS Statistics ver. 20 (IBM Australia, Sydney, NSW, Australia).
Double-data entry of district-level datasets was conducted using CSPro software (U.S. Census Bureau, Washington DC) for both rounds of IBBA.
Ontological and functional domain comparisons between Drosophila and mouse proteomic datasets were conducted using Ontologizer 2.0- a multifunctional software tool for GO term enrichment analysis and data exploration [22].
Phylogenetic analyses of these two datasets were conducted using PAUP*4.0 [ 36].
The MP analyses of concatenated datasets were conducted using PAUP* version 4b10 [ 95] and consisted of heuristic searches with 100,000 replicates of random stepwise addition and TBR branch swapping.
Maximum likelihood analyses on partitioned and unpartitioned datasets were conducted using Randomised Accelerated Maximum Likelihood, RaxML version 7.4.2 with 100 bootstrap replicates and 10 subsequent thorough ML searches under the general time reversable (GTR) substition model and the gamma model of among site rate heterogeneity [ 52].
ML phylogeny on each dataset was conducted using RAxML (Stamatakis 2006) with the GTRGAMMA model.
Maximum likelihood (ML) analysis of the dataset was conducted using RAxML version 7.0.3 [ 51], using GTR+GAMMA+P-Invar model parameters (4 gamma categories).
Successful segmentation of the dataset was conducted using a combination of level-set segmentation filters, combined in a sequential processing pipeline to refine the segmentation at each stage.
The final likelihood analysis of the joint dataset was conducted using RaxML [ 63] under a GTR+Г+I model with 1,000 nonparametric bootstrap iterations, adopting the partitioning strategy preferred by Bayes factor comparisons and using a 16-state secondary structure model for the stem regions of 28S.
Pathway analysis of the discovery GWAS dataset was conducted using the SNP ratio test (SRT) SRT was used to investigate the associations with breast cancer for 212 pathways and their genes (approximately 4,700) taken from the Kyoto Encyclopedia of Genes and Genomes (KEGG) database (05/12/08) [ 39].
