Table 15.2. List of significantly associated haplotypes based on the Endometriosis Disease 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 15.1. 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)   
226      T           296    270       426         426            1.320   4482                 
226      C           130    156       426         426            0.760   4482                 
226      C           125    143       426         426            0.820   4484                 
226      A           301    283       426         426            1.220   4484                 
226      A           59     82        426         426            0.670   4485                 
226      C           367    344       426         426            1.480   4485                 
226      G           107    131       426         426            0.760   4486                 
226      T           319    295       426         426            1.320   4486                 
226      A           379    394       426         426            0.650   4488                 
226      G           47     32        426         426            1.530   4488                 
226      C           351    330       426         426            1.360   4489                 
226      A           75     96        426         426            0.730   4489                 
226      C           112    163       426         426            0.580   4490                 
226      T           314    263       426         426            1.740   4490                 
226      A           190    153       426         426            1.440   4492                 
226      G           236    273       426         426            0.700   4492                 
226      A           144    203       426         426            0.560   4493                 
226      C           282    223       426         426            1.780   4493                 
226      T           175    225       426         426            0.620   4494                 
226      G           251    201       426         426            1.610   4494                 
226      G           128    180       426         426            0.590   4495                 
226      A           298    246       426         426            1.700   4495                 
226      A           213    152       426         426            1.800   4496                 
226      G           213    274       426         426            0.550   4496                 
226      C           116    179       426         426            0.520   4497                 
226      T           310    247       426         426            1.940   4497                 
227      A           301    324       428         428            0.760   5796                 
227      G           127    104       428         428            1.310   5796                 
227      C           185    148       428         428            1.440   5799                 
227      A           243    280       428         428            0.690   5799                 
227      A           349    314       428         428            1.600   5801                 
227      G           79     114       428         428            0.620   5801                 
227      G           256    315       428         428            0.530   5802                 
227      A           172    113       428         428            1.870   5802                 
227      T           161    225       428         428            0.540   5803                 
227      G           267    203       428         428            1.840   5803                 
227      A           337    303       428         428            1.530   5805                 
227      G           91     125       428         428            0.650   5805                 
227      G           84     113       428         428            0.680   5806                 
227      T           344    315       428         428            1.470   5806                 
227      G           362    334       428         428            1.540   5807                 
227      A           66     94        428         428            0.650   5807                 
227      C           229    189       428         428            1.460   5809                 
227      T           199    239       428         428            0.690   5809                 
227      G           362    333       428         428            1.560   5810                 
227      A           66     95        428         428            0.640   5810                 
228      T           347    328       428         428            1.310   5860                 
228      C           81     100       428         428            0.770   5860                 
228      C           95     119       428         428            0.740   5861                 
228      T           333    309       428         428            1.350   5861                 
228      G           161    113       428         428            1.680   5862                 
228      A           267    315       428         428            0.590   5862                 
228      G           317    369       428         428            0.460   5863                 
228      T           111    59        428         428            2.190   5863                 
228      T           284    264       428         428            1.230   5864                 
228      C           144    164       428         428            0.820   5864                 
228      C           135    98        428         428            1.550   5865                 
228      T           293    330       428         428            0.640   5865                 
229      T           147    185       428         428            0.690   6125                 
229      G           281    243       428         428            1.460   6125                 
229      T           82     64        428         428            1.350   6128                 
229      C           346    364       428         428            0.740   6128                 
229      A           145    188       428         428            0.650   6129                 
229      G           283    240       428         428            1.530   6129                 
229      A           143    191       428         428            0.620   6130                 
229      G           285    237       428         428            1.610   6130                 
229      A           256    203       428         428            1.650   6131                 
229      G           172    225       428         428            0.610   6131                 
229      C           150    210       428         428            0.560   6132                 
229      A           278    218       428         428            1.790   6132                 
229      A           238    187       428         428            1.610   6133                 
229      G           190    241       428         428            0.620   6133                 
229      A           270    219       428         428            1.630   6135                 
229      G           158    209       428         428            0.610   6135                 
229      A           145    198       428         428            0.600   6137                 
229      G           283    230       428         428            1.680   6137                 
229      C           228    181       428         428            1.560   6138                 
229      T           200    247       428         428            0.640   6138                 
229      G           145    199       428         428            0.590   6139                 
229      A           283    229       428         428            1.700   6139                 
229      C           283    229       428         428            1.700   6140                 
229      T           145    199       428         428            0.590   6140                 
229      T           193    247       428         428            0.600   6141                 
229      C           235    181       428         428            1.660   6141                 
229      C           145    199       428         428            0.590   6142                 
229      T           283    229       428         428            1.700   6142                 
229      T           154    218       428         428            0.540   6143                 
229      C           274    210       428         428            1.850   6143                 
229      A           23     33        428         428            0.680   6144                 
229      G           405    395       428         428            1.470   6144                 
229      G           141    163       428         428            0.800   6145                 
229      A           287    265       428         428            1.250   6145                 
229      A           264    233       428         428            1.350   6146                 
229      G           164    195       428         428            0.740   6146                 
230      T           272    254       428         428            1.190   6452                 
230      C           156    174       428         428            0.840   6452                 
230      T           193    237       428         428            0.660   6457                 
230      C           235    191       428         428            1.510   6457                 
230      A           327    293       428         428            1.490   6458                 
230      G           101    135       428         428            0.670   6458                 
230      C           212    167       428         428            1.530   6459                 
230      T           216    261       428         428            0.650   6459                 
230      A           166    214       428         428            0.630   6460                 
230      G           262    214       428         428            1.580   6460                 
230      T           168    214       428         428            0.650   6461                 
230      C           260    214       428         428            1.550   6461                 
230      A           199    147       428         428            1.660   6462                 
230      C           229    281       428         428            0.600   6462                 
230      T           260    214       428         428            1.550   6463                 
230      C           168    214       428         428            0.650   6463                 
230      C           194    144       428         428            1.640   6466                 
230      T           234    284       428         428            0.610   6466                 
230      C           108    146       428         428            0.650   6469                 
230      T           320    282       428         428            1.530   6469                 
230      A           213    274       428         428            0.560   6470                 
230      G           215    154       428         428            1.800   6470                 
230      A           165    228       428         428            0.550   6472                 
230      G           263    200       428         428            1.820   6472                 
230      G           214    155       428         428            1.760   6473                 
230      A           214    273       428         428            0.570   6473                 
230      T           113    151       428         428            0.660   6474                 
230      C           315    277       428         428            1.520   6474                 
230      C           194    239       428         428            0.660   6477                 
230      T           234    189       428         428            1.530   6477                 
231      T           312    291       428         428            1.270   6524                 
231      C           116    137       428         428            0.790   6524                 
231      A           318    256       428         428            1.940   6527                 
231      G           110    172       428         428            0.510   6527                 
231      C           402    376       428         428            2.140   6528                 
231      T           26     52        428         428            0.470   6528                 
231      C           378    346       428         428            1.790   6529                 
231      T           50     82        428         428            0.560   6529                 
231      G           386    359       428         428            1.770   6530                 
231      A           42     69        428         428            0.570   6530                 
231      C           386    359       428         428            1.770   6531                 
231      T           42     69        428         428            0.570   6531                 
231      T           330    347       428         428            0.790   6532                 
231      C           98     81        428         428            1.270   6532                 
231      G           399    373       428         428            2.030   6533                 
231      A           29     55        428         428            0.490   6533                 
231      T           32     54        428         428            0.560   6534                 
231      C           396    374       428         428            1.790   6534                 
231      A           396    372       428         428            1.860   6535                 
231      C           32     56        428         428            0.540   6535                 
231      A           49     83        428         428            0.540   6536                 
231      G           379    345       428         428            1.860   6536                 
231      G           395    385       428         428            1.340   6537                 
231      A           33     43        428         428            0.750   6537                 
231      A           353    333       428         428            1.340   6539                 
231      G           75     95        428         428            0.740   6539                 
231      A           350    333       428         428            1.280   6540                 
231      G           78     95        428         428            0.780   6540                 
231      G           78     95        428         428            0.780   6541                 
231      A           350    333       428         428            1.280   6541                 
231      A           338    314       428         428            1.360   6542                 
231      G           90     114       428         428            0.730   6542                 
231      T           81     97        428         428            0.800   6543                 
231      C           347    331       428         428            1.260   6543                 
231      G           387    376       428         428            1.310   6544                 
231      A           41     52        428         428            0.770   6544                 
