Readme for schizophrenia geneome scan meta-analysis files

The two spreadsheets available on this page contain the data used
in the article:

Lewis CM et al.  Genome scan meta-analysis of schizophrenia and
bipolar disorder Part II: Schizophrenia. Am J Human Genetics, in
press (2003).

The paper will be posted here when the final version is available.
The data in these spreadsheets have been used to create Figures 1
and 2.  Figure 1 illustrates the rank for each study for each bin,
organized into 8 groups of ranks for clarity – within each study,
the rank order is the same whether weighted or unweighted.  The
WEIGHTED sum of ranks is shown in this Figure.  In Figure 2, both
weighted and unweighted average ranks are shown.  All permutation
tests were carried out with the grids of unweighted or weighted
ranks shown in these two files.

The references for each study are shown in Table 1 of the paper.

The files contain the following information:

1. scz_unweightedranks_and_weights.xls

This file lists, for each of the 20 genome scans, the rank
associated with each of the 120 bins (see paper for details of
ranking procedure), and the sum of ranks for each bin.  Bin B1_2
is chromosome 1, bin 2 (approximately 30-60 cM on the Marshfield
map – see the Figure 1 in the paper for exact Marshfield locations
and markers that serve as bin boundaries).  Ranks are in
DESCENDING order, so a sum of 120 is most significant.  Note that
in the paper, these sums were transformed into average ranks in
DESCENDING order, so that an average of 1 is best: It is
mathematically equivalent to rank bins in descending order and to
average rather than sum the ranks across bins.  For any sum of
rank R, the equivalent average ascending rank R(avg) is: (n+1) –
(R/ m).  Results have been expressed this way in the current paper
to provide a more intuitive terminology.

The weights are also shown that were assigned to each study for
computation of weighted ranks (see the next file).  The weights
are the standarized square root of the number of genotyped
affected cases in the scan.

2. scz_weightedranks.xls

This shows the same data as in the first file, but the ranks have
been multipled by the study’s weight.



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