Table 15.1. Genome wide association study results in the Quebec Founder Population (QFP). SNP
markers found to be associated with Endometriosis from the analysis of genome wide scan (GWS) data:
has SYNE1-1 cr. Columns include: Region ID; Chromosome; Build 36 location in base pairs (bp); rs#,
dbSNP data base (NCBI) reference number; Sequence ID, unique numerical identifier for this patent
application; Sequence, 21 bp of sequence covering 10 base pair of unique sequence flanking either
side of central polymorphic SNP; - log10 P values for GWS, - log10 of the P value for statistical
significance from the GWS for single SNP markers (both T test and Permutation test p-values are
displayed; see Example section) and for the most highly associated multi-marker haplotypes centered
at the reference marker and defined by the sliding windows of specified sizes.

                                                                             ldstatv2        ldstatv2   ldstatv2   ldstatv2   ldstatv2   
Region ID   Chr   B36 Position   RS#        Seq ID   Flanking Sequence       Single Marker   W03        W05        W07        W09        
226         2     40321922       4952599    4477     TGTTCTCACTKACAAATGGGA   0.029           -          -          -          -          
226         2     40330370       10490209   4478     TAGTAAAAATKGCCAACGAAT   0.122           0.004      -          -          -          
226         2     40338578       434082     4479     GTAATCACAAYGACAGGAGTA   0.177           0.039      0.020      -          -          
226         2     40346292       403630     4480     TAACAAAATCMATTTTTAAAT   0.099           0.079      0.157      0.139      -          
226         2     40351005       717827     4481     TTATCATCTTMTAGTTTGTAT   0.183           1.036      0.200      0.130      0.209      
226         2     40354855       2110745    4482     TGATCACATTYGCATACTAGA   1.227           0.332      0.718      0.353      0.204      
226         2     40356750       17025732   4483     TTTGATTGGCRTATTTGGCAA   0.058           0.317      0.492      0.447      0.272      
226         2     40357238       929633     4484     CTTCTACTTAMATCAAGGCCA   0.735           0.876      0.433      0.395      0.400      
226         2     40372632       10490053   4485     CAACGTATGTMAGAGATCTAA   1.469           0.478      0.358      0.291      0.199      
226         2     40380632       727477     4486     GGGAAAGGAAKTGCGCATACA   1.175           0.682      0.371      0.280      0.564      
226         2     40381169       6544318    4487     GTGCCTCAGCRTAAGTCTGAA   0.564           0.852      0.401      0.507      0.386      
226         2     40392472       2110743    4488     CAGTTTCTACRACAAATATCA   1.117           0.799      1.068      0.617      0.668      
226         2     40403959       741287     4489     ATGGATGTAAMTTAAGACTTT   1.140           2.044      1.185      0.665      1.274      
226         2     40424930       10490051   4490     TCATGCACTAYTTGCCTGGGA   3.730           1.972      1.422      0.941      1.038      
226         2     40426854       10490049   4491     TAGGGTTGATKTCTTTTATTG   0.571           2.157      2.117      1.645      1.026      
226         2     40427711       7561383    4492     GGCAATAGATRGCACTTTGTA   2.011           3.245      3.007      1.532      1.103      
226         2     40435853       990270     4493     TACTGTGATAMTGCTGGAAAA   4.410           3.382      2.831      2.384      1.953      
226         2     40444462       2216009    4494     GTTATAACATKCATTTCTTTA   3.223           3.970      2.865      2.522      1.875      
226         2     40457774       2192777    4495     GTTACTCAAGRAAGAGTTTAT   3.680           2.477      4.246      2.590      2.097      
226         2     40469024       6742210    4496     ACGTTCATCTRAGCAGTATCT   4.618           3.781      2.760      2.818      1.849      
226         2     40471324       2373859    4497     TTTTCACATAYACATAGTCCA   5.243           4.190      3.356      1.883      -          
226         2     40473654       7570435    4498     GCAGGAGAAAYGTTGTCAAAT   0.154           4.265      3.406      -          -          
226         2     40474891       12615002   4499     CAACATGTTAYGCAAACACCT   0.135           0.176      -          -          -          
226         2     40481216       6544336    4500     CATGGATCACRTGAGGAGGAA   0.246           -          -          -          -          
227         13    65621625       7983545    5794     AGAGTTATTTRCTTTATTGAT   0.561           -          -          -          -          
227         13    65633595       9529029    5795     ATGAGAAAATRAAGAAACTAT   0.375           0.873      -          -          -          
227         13    65642626       10507731   5796     TTGATGGACARTAAAAGAGAT   1.116           0.629      1.678      -          -          
227         13    65653522       1322730    5797     TTCCCATACAYTGGTAAGATG   0.084           1.398      1.260      1.211      -          
227         13    65661733       9599086    5798     TGGTCAAGTGMTACTGCCACT   0.480           1.324      1.036      1.402      1.567      
227         13    65664886       1928957    5799     AAATTAGAGAMGATTCTAGTG   2.023           1.091      2.194      1.878      1.753      
227         13    65673614       1322718    5800     TTTTACTTTGYTGTTATCCAG   0.546           2.655      3.394      2.579      2.519      
227         13    65680541       11148694   5801     TATTGTCATCRCTTTTGATGG   2.377           3.026      3.174      3.832      3.372      
227         13    65689343       1322732    5802     GCTGATAAATRTTTAGGGCAG   4.727           3.952      4.206      3.558      3.303      
227         13    65696611       2183456    5803     ATTTTTGGTTKTGCTATAAAC   4.958           4.465      5.302      4.441      3.263      
227         13    65696924       11618305   5804     AGGCTCCCACYTTTCACAGAG   0.263           3.894      6.132      4.717      3.629      
227         13    65715323       1928955    5805     AATCTGCACCRACATTAGTGA   2.127           1.060      5.320      4.856      4.363      
227         13    65715908       7326466    5806     CTCTAGAGACKGCACTTCACA   1.732           1.347      1.868      5.114      4.666      
227         13    65719917       9592458    5807     AGTCTGGAAGRAGAAAAATTT   1.851           1.236      1.881      2.071      3.445      
227         13    65741222       2324908    5808     TAACTGCTCARTTTGTCTGGA   0.122           1.587      1.729      2.075      -          
227         13    65761185       4884665    5809     AGGCTTTGGCYACATAACCTG   2.205           1.763      1.649      -          -          
227         13    65794513       17501046   5810     TACTGCCTACRTGTTTAAAGA   1.951           1.859      -          -          -          
227         13    65803933       1334399    5811     TAGGAACAACRAGTTCCTTGG   0.259           -          -          -          -          
228         13    89310688       9301627    5857     TGTATATCATRTGGGTGTCAG   0.113           -          -          -          -          
228         13    89311154       9560478    5858     TTGTCTCAGGKTTGCCAGTGC   0.145           0.052      -          -          -          
228         13    89316913       9301628    5859     TAATATAAAARTAATCCTTCT   0.000           0.263      0.345      -          -          
228         13    89319110       2349953    5860     CTCTGGCACTYACTACCTATG   0.952           0.908      1.232      1.706      -          
228         13    89320971       953937     5861     AGGTAGGCCTYTTTGTGTAAT   1.235           2.224      3.356      1.570      1.051      
228         13    89328238       1935187    5862     CCAGAAAACTRTCATTCTTGA   3.360           3.836      2.979      2.649      1.957      
228         13    89339301       7318897    5863     GTAAGGCAGTKCCAGTTAGGT   5.076           3.544      3.945      2.648      2.690      
228         13    89341915       1578536    5864     TACAATATGGYGCAACACTGA   0.811           3.734      4.160      3.643      -          
228         13    89355833       1341651    5865     ATTTAGGCTTYTGTCTTCAGA   2.347           2.155      3.929      -          -          
228         13    89366013       16943606   5866     TTTAAGACCAYAATACAAGGT   0.000           1.539      -          -          -          
228         13    89366451       1935179    5867     ATATATTTTTKCTTCCCTCCA   0.275           -          -          -          -          
229         18    21155549       4800629    6113     GGAACACAAAMAAATGTGGCT   0.144           -          -          -          -          
229         18    21170719       4129501    6114     ACACAGGTACRTAAAAATTCC   0.268           0.153      -          -          -          
229         18    21172006       12456829   6115     TATATACATCRCAATTTAAGA   0.145           0.157      0.043      -          -          
229         18    21175713       4594329    6116     ACCATACACAYGTACGTCCTT   0.515           0.115      0.100      0.014      -          
229         18    21181755       7230778    6117     ATTGTGTCTTMATGTTTTTAT   0.204           0.282      0.038      0.092      0.004      
229         18    21186844       8089585    6118     GAGTTCACTTYTTTAACATTC   0.252           0.040      0.268      0.236      0.080      
229         18    21196495       10163652   6119     CGCAGGGCTTRGCAAAGAAGG   0.000           0.003      0.044      0.155      0.208      
229         18    21209679       4800631    6120     GCAAGGCTGTKTGCCATTTTA   0.181           0.011      0.000      0.124      0.077      
229         18    21211816       11662932   6121     AGCAAATACTRTTTCCTCTAT   0.057           0.003      0.150      0.095      0.497      
229         18    21233039       12454941   6122     AATATGAACCYGACTCAAGAG   0.066           0.590      0.144      0.451      0.288      
229         18    21243602       10853653   6123     GAAATATCTAYTCAAGTTAGA   0.111           0.201      0.823      0.438      0.062      
229         18    21248308       4516308    6124     TATAGACGTAYAGGCATACCT   0.045           0.975      0.680      0.124      0.144      
229         18    21255712       4129498    6125     AATAGACTTAKAATATGACCC   2.114           1.111      0.797      0.500      0.171      
229         18    21259202       8086241    6126     TCAGTGGCTGKGACTGTGCTC   0.252           1.632      0.900      1.448      0.826      
229         18    21275054       12457455   6127     TAGGTAAGGTMGGCTTGTTAC   0.339           0.680      0.901      0.618      0.853      
229         18    21293512       4800633    6128     CTCTACAACAYGCAGCCGCAC   0.992           1.701      1.985      1.011      0.948      
229         18    21293614       888285     6129     TCTCTTCAGTRACTTCTCTTC   2.590           1.797      2.151      2.477      0.929      
229         18    21299935       4800217    6130     GTATAATAATRTTGCCTGCAC   3.113           2.033      2.233      1.471      2.105      
229         18    21305738       12961741   6131     ACTGGGAAGARACAAAAAATA   3.552           2.494      1.813      1.169      1.018      
229         18    21332078       7226739    6132     TCCATTCCCTMGTTATTTGCA   4.486           2.674      1.904      0.810      0.498      
229         18    21345125       1362713    6133     GTACTCATAARTGCATATACA   3.310           2.244      1.768      0.670      0.402      
229         18    21375541       1627290    6134     TGTGTGTGTTKAACTTATGAT   0.252           1.833      1.477      1.485      0.758      
229         18    21383635       17798998   6135     AAAACACCCARTTAGGATTCC   3.369           2.001      1.086      1.440      1.388      
229         18    21390531       273729     6136     AGCATCCATGRTGCACCTATC   0.166           2.212      1.770      1.244      1.483      
229         18    21431704       17525      6137     AAAATGGCTARACCAGGTGAA   3.661           2.390      3.000      1.840      1.713      
229         18    21436616       273735     6138     TCCTCCCCACYTCCATATTTT   2.886           2.778      2.963      3.441      2.022      
229         18    21440273       273743     6139     CGTGGGTGTARGTATTTTTAC   3.778           2.778      4.786      3.579      3.285      
229         18    21442192       273747     6140     TTTTCATGTAYTGAGCCTTTG   3.778           3.363      4.786      4.256      3.507      
229         18    21443995       273750     6141     ATAATGAATCYTAATGTAAAC   3.654           3.363      3.684      4.176      3.803      
229         18    21445436       273754     6142     GCCTTCATTAYACAAGCTGAA   3.778           2.981      3.633      3.176      3.420      
229         18    21462799       1823940    6143     CAGTTATTATYGATGAGTATC   4.991           3.225      3.176      3.311      2.655      
229         18    21468182       9952296    6144     TTTATTCTATRGTCTTGTCCA   0.778           2.895      3.028      2.673      -          
229         18    21480604       1811520    6145     CACAAAATAGRCTAAGACACC   0.935           1.010      3.446      -          -          
229         18    21488315       979166     6146     CCTAGCTTCARTTGCCATCTA   1.498           0.783      -          -          -          
229         18    21511184       1840440    6147     AAGACCTACCYGAATTATTTT   0.170           -          -          -          -          
230         22    41473843       4365558    6451     CTAAGGCTGGYGTCATAGGAC   0.453           -          -          -          -          
230         22    41478203       5758913    6452     GGAGCTAGGAYGAGTTCCCAA   0.686           0.221      -          -          -          
230         22    41483090       7287569    6453     AAAAAAAAAAMCCCTATGAAT   0.171           0.333      2.998      -          -          
230         22    41490089       5996233    6454     GGCTCCCTTGMCACCTCATTG   0.401           0.565      0.792      2.426      -          
230         22    41492896       2413716    6455     CTGAGCCGTGYAGCAGGCTGG   0.484           0.446      1.375      1.149      1.241      
230         22    41494313       8140077    6456     TAGGGAGGGARATTATCCTAG   0.351           1.853      1.689      1.122      3.151      
230         22    41502211       738532     6457     ACATTGACTAYGATGCCAATT   2.580           1.839      2.120      2.657      2.709      
230         22    41504357       4634034    6458     AAGTACATAGRGAATAGAGTA   2.031           1.406      1.843      1.850      1.672      
230         22    41513706       1997885    6459     CAGGGCAGGGYGTACAACAGA   2.708           2.202      2.289      1.680      1.684      
230         22    41524217       1807591    6460     GAACTCTCCGRAATGGGTGCA   3.018           2.867      2.254      2.447      1.957      
230         22    41533081       738535     6461     AGGAACTTGCYGACAGCCTCT   2.806           2.978      2.710      2.855      2.612      
230         22    41536894       1018448    6462     CGTCAAAGTAMCTGTAGGAGC   3.534           2.961      4.002      2.906      2.484      
230         22    41547899       5758956    6463     TGGTATCTTAYTGTGGCCTTG   2.806           3.008      4.003      3.609      2.172      
230         22    41619682       2076158    6464     GTTTACCACAYCCCTCTCCAA   0.181           2.017      3.280      2.184      2.355      
230         22    41629822       2267465    6465     CTGACTGGCCRTATCCTCTGT   0.237           2.846      2.836      2.702      2.433      
230         22    41656054       4822231    6466     TTTCTCATCGYGAACCATGAG   3.326           2.745      3.126      2.382      2.381      
230         22    41665434       5759049    6467     TGACGCAGTTRGAGCAGGCCT   0.000           2.881      2.695      2.725      2.274      
230         22    41669820       3819674    6468     ACAATACAATRTAGAAAGCAA   0.192           1.857      3.295      2.582      2.799      
230         22    41679576       1071960    6469     AATGCAGTGCYAAGGGTTTCA   2.350           3.430      4.224      3.317      4.672      
230         22    41696240       5759066    6470     TAATGAAAAGRGCACTTCACC   4.593           3.430      4.223      4.141      3.505      
230         22    41720263       2018340    6471     CAAGCCCCATRTGTCAGATAG   0.192           3.825      4.397      3.822      3.369      
230         22    41722800       7286299    6472     CATTTCCTAGRTATGAGGCCT   4.809           3.918      3.491      2.982      2.405      
230         22    41744274       3091364    6473     GAGACTGACCRGCTTTAGTTT   4.332           3.793      3.335      2.424      1.760      
230         22    41745525       13057591   6474     CTCTGAATGAYATGCTCACCT   2.308           2.313      3.580      2.188      2.302      
230         22    41766113       2072884    6475     ATTGTGGACARTGGTCTCCCC   0.227           1.555      2.395      2.683      2.729      
230         22    41769240       7349054    6476     CACTCCCTCARGAAGTCCACA   0.322           1.871      1.220      2.192      2.325      
230         22    41772543       5759111    6477     GAAAGACCCAYGTTCCTCACC   2.679           1.668      1.736      0.818      -          
230         22    41789757       9680750    6478     GAAAGGACACRCTCACCCCGT   0.363           1.662      1.125      -          -          
230         22    41792395       2235379    6479     TAAGCATGGCYGGGCATGGTG   0.090           0.081      -          -          -          
230         22    41795473       2076154    6480     CACCACAACTYGCATGGACAT   0.167           -          -          -          -          
231         X     152754286      7877342    6524     CTCATATGAAYGTGGTATTTT   0.937           -          -          -          -          
231         X     152799594      5945361    6525     GGCAACTACARCTCACCTGTA   0.353           0.418      -          -          -          
231         X     152811550      4898457    6526     ACAAATACCCRTGGCTTTTTC   0.260           3.351      4.022      -          -          
231         X     152829448      2070097    6527     AGTCCAGGTCRTGGGCAGTGC   5.186           4.060      4.986      4.647      -          
231         X     152843013      2269368    6528     AATTGCAAGTYGATTGCATTG   2.696           3.730      4.890      3.987      4.445      
231         X     152850324      1557501    6529     GCATTCTCCTYGATTCTGCTC   2.610           1.453      3.494      3.976      3.018      
231         X     152892914      2266888    6530     CCAGCTCTCCRCCCTGCTTGC   2.221           1.752      1.410      2.634      3.906      
231         X     152901148      6571303    6531     CTCTTGAGTGYGTCTCCCTGG   2.221           1.687      1.345      1.771      3.483      
231         X     152905727      5945382    6532     CAGTTAGGTCYCAGGAGTGGG   0.815           1.549      2.663      1.943      2.244      
231         X     152937386      1059702    6533     GCAAAACGGARAGGGGCGGGC   2.550           1.907      2.465      3.237      1.920      
231         X     152945374      2734647    6534     GTCCCCTGTGYCTTTTGATAT   1.907           1.988      3.541      2.315      1.987      
231         X     152978640      1734787    6535     TAAGCAGTACMTCTGTTGGCA   2.160           2.730      2.652      1.852      2.698      
231         X     153001625      2239464    6536     GCACGGAGCARTACAGACCAG   2.889           1.154      2.144      2.850      2.837      
231         X     153034217      3850327    6537     GTCTGCAGTCRTGCACCTGAC   0.639           1.840      2.599      3.316      3.358      
231         X     153041112      2071649    6538     CCAGGAAAATRCATACATTGG   0.000           1.136      3.312      3.101      4.124      
231         X     153204577      5987245    6539     GTGCAAGAACRCAATGTAAAT   1.062           0.508      1.520      3.493      2.945      
231         X     153208077      2239466    6540     AGTTGCAAGTRCTCAGAATGG   0.830           0.693      0.843      2.025      2.748      
231         X     153208488      2239467    6541     CTGTACTATCRGCAATGGTTC   0.830           0.707      0.432      0.574      -          
231         X     153232642      2070822    6542     GGGGTGCTTGRGCCAGGGCAA   1.266           0.445      0.716      -          -          
231         X     153263157      17428      6543     GATTGCAATCYGGCTTTGTTG   0.750           0.483      -          -          -          
231         X     153279932      915942     6544     TCGGTGTGGTRAGTAAGCGCA   0.644           -          -          -          -          
