[GenABEL-dev] announcements

[Yurii Aulchenko]

Dear All,

I'd like to publish the following news on genabel.org in coming days. Your
comments are welcome!

YA


A manuscript on a new region-based association analysis method and GRAMMAR+
transformation

The team led by Prof. Axenovich has published the manuscript on <a href="
http://www.plosone.org/article/info%3Adoi%2F10.1371%2Fjournal.pone.0065395">"Region-Based
Association Analysis of Human Quantitative Traits in Related
Individuals"</a>. Additionally to providing a region-based analysis method,
the manuscript also features description of the GRAMMAR+ transformation,
which allows treating transformed trait values as if they were measured in
a population-based study of unrelated individuals. We foresee this
transformation will be very useful, e.g. it allows application of multiple
methods developed in the population-based context to the analysis of data
with genetic (sub)structure.

The GRAMMAR+ transformation is an improvement of the <a href="
http://www.genetics.org/content/177/1/577">original GRAMMAR-residuals</a>
(aka "environmental residuals"), which are known to lead to conservative
analysis. This is not the case with the new GRAMMAR+ transform.

GRAMMAR+ transformation is available in the GenABEL package as one of the
objects (...$grresidualY) returned by the 'polygenic' command.



Update of the open "GenABEL tutorial"

Open <a href="http://www.genabel.org/tutorials">GenABEL tutorial</a> -- as
announced in <a href="http://www.genabel.org/news20130625">previous
story</a> -- has reached total length of 261 pages after a recent update.
The update mostly concerns the chapter "GWA analysis in presence of
stratification: theory".

The text of this chapter is in large part based on a chapter "Effects of
Population Structure in Genome-wide Association Studies" of a the book <a
href="
http://store.elsevier.com/Analysis-of-Complex-Disease-Association-Studies/isbn-9780123751423/">"Analysis
of Complex Disease Association Studies: A Practical Guide"</a> published by
Elsvier in 2011.

We thank Elsvier for the permission to reproduce the text and figures in
our tutorial.
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