Table 28.2. List of significantly associated haplotypes based on the schizophrenia Disease GWS
results using the Quebec Founder Population (QFP). Individual haplotypes with associated relative
risks are presented in each row of the table; these values were extracted from the associated
marker haplotype window with the most significant p value for each SNP in Table 28.1. The first
column lists the region ID as presented in Table 1. The Haplotype column lists the specific
nucleotides for the individual SNP alleles contributing to the haplotype reported. The Case and
Control columns correspond to the numbers of cases and controls, respectively, containing the
haplotype variant noted in the Haplotype column. The Total Case and Total Control columns list the
total numbers of cases and controls for which genotype data was available for the haplotype in
question. The RR column gives to the relative risk for each particular haplotype. The remainder of
the columns lists the SeqIDs for the SNPs contributing to the haplotype and their relative location
with respect to the central marker. The Central marker (0) column lists the SeqID for the central
marker on which the haplotype is based. Flanking markers are identified by minus (-) or plus (+)
signs to indicate the relative location of flanking SNPs.

Region   Haplotype   Case   Control   TotalCase   TotalControl   RR      Central Marker (0)   
369      T           415    424       436         436            0.560   14576                
369      C           21     12        436         436            1.790   14576                
369      T           216    195       436         436            1.210   14577                
369      C           220    241       436         436            0.820   14577                
369      G           243    223       436         436            1.200   14578                
369      A           193    213       436         436            0.830   14578                
369      A           22     50        436         436            0.410   14579                
369      G           414    386       436         436            2.440   14579                
369      T           187    153       436         436            1.390   14580                
369      C           249    283       436         436            0.720   14580                
369      T           10     30        436         436            0.320   14584                
369      C           426    406       436         436            3.150   14584                
369      G           21     64        436         436            0.290   14585                
369      A           415    372       436         436            3.400   14585                
369      G           198    235       436         436            0.710   14586                
369      T           238    201       436         436            1.410   14586                
369      A           350    326       436         436            1.370   14589                
369      G           86     110       436         436            0.730   14589                
