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The software Osirix (Pixmeo, Geneva, Switzerland) was used to quantitatively analyse the datasets and generate pictures.
gMOS was developed to analyse the datasets presented in this paper and is now recognized as an extremely effective tool [32].
Microsoft Excel 2013 and Stata V13 were used to assemble and analyse the datasets.
Here, we analyse the datasets corresponding to those 25 TFs for which position specific frequency matrix (PFMs) are available in TRANSFAC.
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We then focused on integrating image analysis techniques to help visualise and analyse the dataset, first to validate the data and then to enrich the information extracted.
PhyML was used to analyse the dataset and model parameters were estimated from the original dataset.
MG conceived the statistical method to analyse the dataset.
IPA (Ingenuity Systems) was used to analyse the dataset of differentially expressed genes.
In our analyses, the datasets have important differences in terms of the population they represent.
First, we analysed the datasets using a case-control design.
RHNW wrote all scripts, generated and analysed the datasets.
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Justyna Jupowicz-Kozak
CEO of Professional Science Editing for Scientists @ prosciediting.com