Online Supplemental Data1

E-Table1: Linkage analysis of the loci known for partial epilepsy, epilepsy with migraine, familial hemiplegic migraine and common migraine.

Disease / Locus / Affected
gene / Genotyped
STR markers / Genetic
distance
(cM) / Two point
lod score
at θ=0.0 / Max. multipoint
lod score / References
BECTS / 15q14 / ? / D15S165 / 20.24 / -2.38 / 1
-2.05
D15S995 / 25.86 / -1.99
ADPEAF / 10q24 /

LGI1

/ D10S185 / 116.34 / -2.87 / 2,3
-2.83
D10S1709 / 119.70 / -2.51
TLE and FS / 12q22-q23.3 / ? / D12S829 / 97.16 / -2.36 / 4
-2.08
D12S101 / 100.92 / -2.08
-2.08
D12S1716 / 101.45 / -2.55
-1.76
D12S1607 / 107.86 / -1.68
-1.78
D12S78 / 111.87 / -5.14
TLE and FS / 18qter / ? / D18S1161 / 114.26 / -2.60 / 5
-3.81
D18S554 / 119.44 / -4.98
-3.90
D18S70 / 127.01 / -5.11
TLE and FS / 1q25-q31 / ? / D1S2786 / 193.76 / -2.16 / 5
-2.09
D1S1642 / 201.58 / -1.62
-2.53
D1S2877 / 205.40 / -2.11
-2.91
D1S413 / 212.44 / -2.13
-3.67
D1S1647 / 215.99 / -5.58
-5.06
D1S2636 / 222.84 / -5.57
FPEVF / 2q / ? / D2S126 / 221.13 / -2.08 / 6
-2.10
D2S133 / 224.33 / -2.58
-2.29
D2S1363 / 227.00 / -2.19
FPEVF / 22q11-q12 / ? / D22S315 / 21.47 / -2.34 / 7
-1.65
D22S1163 / 28.02 / -2.45
-1.86
D22S280 / 31.30 / -1.99
-2.13
D22S277 / 36.22 / -3.10
PEPS / 4p15 / ? / D4S2366 / 12.93 / -4.63 / 8
-2.61
D4S2315 / 23.76 / -5.28
-4.15
GGAT18G02 / 29.68 / -2.74
-2.81
D4S1533 / 35.03 / -2.08
Autosomal recessive idiopathic epilepsy / 9q32-q33 / ? / D9S2026 / 117.37 / -5.46 / 9
-3.17
D9S1776 / 123.33 / -5.09
-4.14
D9S1864 / 127.98 / -5.16
-3.83
D9S1682 / 132.09 / -2.64
-4.16
D9S242 / 135.85 / -3.36
-3.88
D9S752 / 141.69 / -5.38
FHM1 / 19p13 /

CACNA1A

/ D19S586 / 32.94 / -2.98 / 10,11
-2.70
D19S394 / 34.25 / -3.09
-1.83
GATA134B01 / 36.22 / -2.17
-1.84
D19S840 / 37.94 / -3.12
-2.11
ATA37G08 / 42.28 / -2.96
FHM2 / 1q23 /

ATP1A2

/ D1S1653 / 164.09 / -2.35 / 12,13
-3.09
D1S2707 / 168.52 / -2.60
-3.93
ATA38A05 / 178.42 / -3.31
FHM3 / 2q24 /

SCN1A

/ D2S1353 / 164.51 / -6.94 / 14
-5.55
D2S2330 / 169.41 / -7.18
-6.99
D2S1379 / 169.41 / -7.00
-4.94
D2S2345 / 171.04 / -0.65
MA and MO / 4q21-q24 / ? / GATA68C08 / 93.48 / -0.24 / 15,16
-3.70
D4S1534 / 95.09 / -2.00
-3.69
D4S414 / 100.75 / -5.36
-3.88
D4S2961 / 107.95 / -4.86
MA and MO / Xq24-q28 / ? / DXS8067 / 75.79 / -5.03 / 17
NA
DXS1047 / 82.07 / -1.48
NA
DXS1227 / 88.33 / -1.48
NA
DXS8043 / 94.22 / -2.18
NA
MA and MO / 6p12.2-p21.1 / ? / D6S1552 / 63.28 / -2.68 / 18
-2.55
D6S1650 / 68.85 / -2.89
-2.64
D6S452 / 73.13 / -4.99
-3.05
D6S257 / 79.92 / -2.73
MO / 14q21.2-q22.3 / ? / D14S288 / 47.51 / -2.56 / 19
-2.48
D14S276 / 56.36 / -0.06
-2.47
D14S980 / 60.43 / -2.22
MA / 19p13 / ? / D19S216 / 20.01 / -2.34 / 20
-5.04
D19S427 / 20.75 / -2.45
-4.23
D19S395 / 25.17 / -1.99
-2.55
D19S586 / 32.94 / -3.10
MA and MO / 1q31 / ? / D1S1647 / 215.99 / -5.58 / 21
-5.17
D1S2636 / 222.84 / -5.57
-3.85
D1S425 / 231.11 / -4.98
MA / 15q11-q13 / ? / D15S128 / 6.12 / -2.38 / 22
-2.40
GATA143C02 / 12.30 / -0.68
-2.42
D15S165 / 20.24 / -2.38
MA and MO / 5q21 / ? / D5S1346 / 111.97 / -3.12 / 23
-4.59
D5S2501 / 116.98 / -5.16
-2.16
D5S1484 / 123.45 / -2.45
MA / 11q24 / ? / D11S925 / 118.47 / -2.53 / 24
-2.87
D11S4464 / 123.00 / -3.40
-2.90
D11S4151 / 127.33 / -2.26

Abbreviations: BECTS=benign epilepsy of childhood with centrotemporal spikes; ADPEAF=autosomal dominant partial epilepsy with audiogenic features; TLE= temporal lobe epilepsy; FS=febrile seizures; FPEVF=familial partial epilepsy with variable foci; PEPS=Partial epilepsy with pericentral spikes; FHM=familial hemiplegic migraine; MA=migraine with aura; MO= migraine without aura; ?=unknown; NA= not available

Multipoint LOD scores for markers on chromosome X could not be calculated with the used linkage program

Genetic distance according to Marshfield

References: first report of the locus or gene

1. Neubauer BA, Fiedler B, Himmelein B, Kampfer F, et al. Centrotemporal spikes in families with rolandic epilepsy: linkage to chromosome 15q14. Neurology 1998;51(6):1608-1612.

2. Ottman R, Risch N, Hauser WA, Pedley TA, et al. Localization of a gene for partial epilepsy to chromosome 10q. Nat Genet 1995;10(1):56-60.

3. Kalachikov S, Evgrafov O, Ross B, et al. Mutations in LGI1 cause autosomal-dominant partial epilepsy with auditory features. Nat Genet 2002;30(3):335-341

4. Claes L, Audenaert D, Deprez L et al. Novel locus on chromosome 12q22-q23.3 responsible for familial temporal lobe epilepsy associated with febrile seizures. J Med Genet 2004;41(9):710-714.

5. Baulac S, Picard F, Herman A et al. Evidence for digenic inheritance in a family with both febrile convulsions and temporal lobe epilepsy implicating chromosomes 18qter and 1q25-q31. Ann Neurol 2001;49(6):786-792.

6. Scheffer IE, Phillips HA, O’Brien CE et al. Familial partial epilepsy with variable foci: a new partial epilepsy syndrome with suggestion of linkage to chromosome 2. Ann Neurol 1998;44(6):890-899.

7. Xiong L, Labuda M, Li D et al. Mapping of a gene determining familial partial epilepsy with variable foci to chromosome 22q11-q12. Am J Hum Genet1999;65(6):1698-1710.

8. Kinton L, Johnson MR, Smith SJ, et al. Partial epilepsy with pericentral spikes: a new familial epilepsy syndrome with evidence for linkage to chromosome 4p15. Ann Neurol 2002;51(6):740-749.

9. Baykan B, Madia F, Bebek N, et al. Autosomal recessive idiopathic epilepsy in an inbred family from Turkey: identification of a putative locus on chromosome 9q32-33. Epilepsia 2004;45(5):479-487.

10. Joutel A, Bousser MG, Biousse V, et al. A gene for familial hemiplegic migraine maps to chromosome 19. Nat Genet 1993;5(1):40-45.

11. Ophoff RA, Terwindt GM, Vergouwe MN, et al. Familial hemiplegic migraine and episodic ataxia type-2 are caused by mutations in the Ca(2+) channel gene CACNL1A4.Cell1996;87:543-552.

12. Ducros A, Joutel A, Vahedi K, et al. Mapping of a second locus for familial hemiplegic migraine to 1q21-q23 and evidence of further heterogeneity. Ann Neurol 1997;42(6):885-890.

13. De Fusco M, Marconi R, Silvestri L, et al.Haploinsufficiency of ATP1A2 encoding the Na+/K+ pump alpha2 subunit associated with familial hemiplegic migraine type 2. Nat Genet 2003;33(2):192-196.

14. Dichgans M, Freilinger T, Eckstein G, et al. Mutation in the neuronal voltage-gated sodium channel SCN1A in familial hemiplegic migraine. Lancet 2005;366(9483):371-377.

15.Wessman M, Kallela M, Kaunisto MA, et al.A susceptibility locus for migraine with aura, on chromosome 4q24. Am J Hum Genet 2000;70(3):652-662.

16. Bjornsson A, Gudmundsson G, Gudfinnsson E, et al. Localization of a gene for migraine without aura to chromosome 4q21. Am J Hum Genet 2003;73(5):986-993

17. Nyholt DR, Curtain RP, Griffiths LR. Familial typical migraine: significant linkage and localization of a gene to Xq24-28. Hum Genet2000;107(1):18-23

18. Carlsson A, Forsgren L, Nylander PO, et al. Identification of a susceptibility locus for migraine with and without aura on 6p12.2-p21.1. Neurology2002;59(11):1804-1807.

19. Soragna D, Vettori A, Carraro G, et al. A locus for migraine without aura maps on chromosome 14q21.2-q22.3. Am J Hum Genet.2003;72(1):161-167.

20.Jones KW, Ehm MG, Pericak-Vance MA, Haines JL, Boyd PR, Peroutka SJ. Migraine with aura susceptibility locus on chromosome 19p13 is distinct from the familial hemiplegic migraine locus. Genomics. 2001;78(3):150-154.

21. Lea RA, Shepherd AG, Curtain RP, et al. A typical migraine susceptibility region localizes to chromosome 1q31. Neurogenetics 2002;4(1):17-22.

22. Russo L, Mariotti P, Sangiorgi E, et al. A new susceptibility locus for migraine with aura in the 15q11-q13 genomic region containing three GABA-A receptor genes. Am J Hum Genet 2005;76(2):327-333.

23. Nyholt DR, Morley KI, Ferreira MA, et al. Genomewide significant linkage to migrainous headache on chromosome 5q21. Am J Hum Genet2005;77(3):500-512.

24. Cader ZM, Noble-Topham S, Dyment DA, et al. Significant linkage to migraine with aura on chromosome 11q24. Hum Mol Genet.2003;12(19):2511-2517.