EADGENE Data Analysis Workshop

1-3 November 2006, Tune, Denmark

A comparison workshop of analytical tools was held in Tune, Denmark, on 1-3 November 2006, and was attended by thirty-two EADGENE scientists, representing eleven of the thirteen EADGENE Partner institutes.

The workshop followed the format of previous workshops on QTL analyses in humans and animals, and microarray analysis workshops in the USA, by providing participants with data sets to analyse using their preferred methods, and giving them the opportunity present and discuss their methods and results with other experts in the field.

Two microarray data sets were distributed to the participants several months before the workshop: a real data set from an EADGENE experiment and a simulated data set produced by one of the organisers.  The real data had study looked at the gene expression changes following artificial infection with different mastitis causing bacteria, and included two strains of bacteria as well as several time-points, resulting in a true analytical challenge (48 microarrays in total).  A series of presentations from the groups who had analysed this data followed, demonstrating many different methods of quality control, normalisation, single gene and multi-gene analysis, post analyses and a variety of open source and in-house software.  The simulated data set was based on the real data. 

The international research journal, Genetics Selection Evolution, has published the results of this workshop as a series of papers (see below). The presentations of the real and simulated data analyses are available to EADGENE Partners as Downloads in the Intranet.

The description of the simulated data, the simulated data set, the simage settings , and the list of values for the simulated genes are now all available as downloads on the right side of this page.  The simage genes file is best opened with Wordpad, Word or Excel.

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