HiSeqX Repeat Expansion Cohort - Illumina/Polaris GitHub Wiki

Table of Contents

Summary

120 samples obtained from Coriell with orthogonally validated pathogenic mutations for the following diseases:

Disease Gene Abbreviation # samples
Fragile X syndrome FMR1 FXS 57
Friedreich's ataxia 1 FXN FRDA 25
Myotonic dystrophy 1 DMPK DM1 17
Huntington's disease HTT HD 14
Spinocerebellar ataxia 1 ATXN SCA1 3
Dentatorubral-pallidoluysian atrophy ATN1 DRPLA 2
Machado-Joseph disease / Spinocerebellar ataxia 3 ATXN3 MJD / SCA3 1
Kennedy disease / X-linked spinal and bulbar muscular atrophy AR KD / SBMA 1
MTHFR 1*

Approval to access these samples is subject to approval from the Data Access Committee.

Links

EGA

Sample information

CSV format

Sample ID Family ID Sex Population Superpopulation Repository Link OMIM Description Affected References
NA06968 987 F AJ EUR NIGMS Coriell FXS;FMR1 FRAGILE X MENTAL RETARDATION SYNDROME;FMR1 GENE; FMR1 NA 4
NA15848 1842 M CAJUN NA NIGMS Coriell FRDA;FXN FRIEDREICH ATAXIA 1; FRDA;FRATAXIN; FXN NA NA
NA23378 NA M FRENCH/IRISH NA NIGMS Coriell DM1 DYSTROPHIA MYOTONICA 1; DM1 NA 3
NA23709 NA M GERMAN NA NIGMS Coriell KD / SBMA SPINAL AND BULBAR MUSCULAR ATROPHY- X-LINKED 1; SMAX1 NA NA
NA23374 NA F IRISH NA NIGMS Coriell DM1 DYSTROPHIA MYOTONICA 1; DM1 NA 3
CD00014 NA M NA NA Centers Coriell FXS;FMR1 FRAGILE X MENTAL RETARDATION SYNDROME;FMR1 GENE; FMR1 NA 9
CD00022 NA F NA NA Centers Coriell HD HUNTINGTON DISEASE; HD NA 2
NA03132 NA M NA NA NIGMS Coriell DM1;DMPK DYSTROPHIA MYOTONICA 1; DM1;DYSTROPHIA MYOTONICA PROTEIN KINASE; DMPK NA 3
NA03200 NA M NA NA NIGMS Coriell FXS;FMR1 FRAGILE X MENTAL RETARDATION SYNDROME;FMR1 GENE; FMR1 NA 6;8
NA03696 527 F NA NA NIGMS Coriell DM1;DMPK DYSTROPHIA MYOTONICA 1; DM1;DYSTROPHIA MYOTONICA PROTEIN KINASE; DMPK NA 3
NA03697 590 M NA NA NIGMS Coriell DM1;DMPK DYSTROPHIA MYOTONICA 1; DM1;DYSTROPHIA MYOTONICA PROTEIN KINASE; DMPK NA 3
NA03756 488 M NA NA NIGMS Coriell DM1;DMPK;MTHFR DYSTROPHIA MYOTONICA 1; DM1;DYSTROPHIA MYOTONICA PROTEIN KINASE; DMPK;5-10-@METHYLENETETRAHYDROFOLATE REDUCTASE; MTHFR NA 3
NA03759 527 M NA NA NIGMS Coriell DM1;DMPK DYSTROPHIA MYOTONICA 1; DM1;DYSTROPHIA MYOTONICA PROTEIN KINASE; DMPK NA NA
NA03816 594 F NA NA NIGMS Coriell FRDA;FXN FRIEDREICH ATAXIA 1; FRDA;FRATAXIN; FXN NA NA
NA03986 488 M NA NA NIGMS Coriell DM1;DMPK DYSTROPHIA MYOTONICA 1; DM1;DYSTROPHIA MYOTONICA PROTEIN KINASE; DMPK NA 3
NA03989 488 M NA NA NIGMS Coriell DM1;DMPK DYSTROPHIA MYOTONICA 1; DM1;DYSTROPHIA MYOTONICA PROTEIN KINASE; DMPK NA NA
NA03990 488 F NA NA NIGMS Coriell DM1;DMPK DYSTROPHIA MYOTONICA 1; DM1;DYSTROPHIA MYOTONICA PROTEIN KINASE; DMPK NA 3
NA04025 588 M NA NA NIGMS Coriell FXS;FMR1 FRAGILE X MENTAL RETARDATION SYNDROME;FMR1 GENE; FMR1 NA 6;8
NA04034 590 M NA NA NIGMS Coriell DM1;DMPK DYSTROPHIA MYOTONICA 1; DM1;DYSTROPHIA MYOTONICA PROTEIN KINASE; DMPK NA 3
NA04079 594 M NA NA NIGMS Coriell FRDA;FXN FRIEDREICH ATAXIA 1; FRDA;FRATAXIN; FXN NA 1;7
NA04567 584 F NA NA NIGMS Coriell DM1 DYSTROPHIA MYOTONICA 1; DM1 NA 3
NA04648 752 M NA NA NIGMS Coriell DM1 DYSTROPHIA MYOTONICA 1; DM1 NA 3
NA04926 780 M NA NA NIGMS Coriell FXS;FMR1 FRAGILE X MENTAL RETARDATION SYNDROME;FMR1 GENE; FMR1 NA NA
NA05131 819 M NA NA NIGMS Coriell FXS;FMR1 FRAGILE X MENTAL RETARDATION SYNDROME;FMR1 GENE; FMR1 NA NA
NA05152 2531 M NA NA NIGMS Coriell DM1 DYSTROPHIA MYOTONICA 1; DM1 NA 3
NA05164 584 F NA NA NIGMS Coriell DM1 DYSTROPHIA MYOTONICA 1; DM1 NA 3
NA05185 819 M NA NA NIGMS Coriell FXS;FMR1 FRAGILE X MENTAL RETARDATION SYNDROME;FMR1 GENE; FMR1 NA NA
NA06075 583 M NA NA NIGMS Coriell DM1 DYSTROPHIA MYOTONICA 1; DM1 NA 3
NA06852 971 M NA NA NIGMS Coriell FXS;FMR1 FRAGILE X MENTAL RETARDATION SYNDROME;FMR1 GENE; FMR1 NA NA
NA06889 971 F NA NA NIGMS Coriell FXS;FMR1 FRAGILE X MENTAL RETARDATION SYNDROME;FMR1 GENE; FMR1 NA NA
NA06890 971 M NA NA NIGMS Coriell FXS;FMR1 FRAGILE X MENTAL RETARDATION SYNDROME;FMR1 GENE; FMR1 NA NA
NA06891 971 M NA NA NIGMS Coriell FXS;FMR1 FRAGILE X MENTAL RETARDATION SYNDROME;FMR1 GENE; FMR1 NA 1;9
NA06892 971 M NA NA NIGMS Coriell FXS;FMR1 FRAGILE X MENTAL RETARDATION SYNDROME;FMR1 GENE; FMR1 NA 9
NA06893 971 F NA NA NIGMS Coriell FXS;FMR1 FRAGILE X MENTAL RETARDATION SYNDROME;FMR1 GENE; FMR1 NA NA
NA06894 971 F NA NA NIGMS Coriell FXS;FMR1 FRAGILE X MENTAL RETARDATION SYNDROME;FMR1 GENE; FMR1 NA NA
NA06895 971 M NA NA NIGMS Coriell FXS;FMR1 FRAGILE X MENTAL RETARDATION SYNDROME;APPARENTLY HEALTHY NON-FETAL TISSUE;FMR1 GENE; FMR1 NA 1
NA06896 971 F NA NA NIGMS Coriell FXS;FMR1 FRAGILE X MENTAL RETARDATION SYNDROME;FMR1 GENE; FMR1 NA NA
NA06897 971 M NA NA NIGMS Coriell FXS;FMR1 FRAGILE X MENTAL RETARDATION SYNDROME;FMR1 GENE; FMR1 NA 6;8
NA06903 971 F NA NA NIGMS Coriell FXS;FMR1 FRAGILE X MENTAL RETARDATION SYNDROME;FMR1 GENE; FMR1 NA NA
NA06904 971 F NA NA NIGMS Coriell FXS;FMR1 FRAGILE X MENTAL RETARDATION SYNDROME;FMR1 GENE; FMR1 NA NA
NA06905 971 F NA NA NIGMS Coriell FXS;FMR1 FRAGILE X MENTAL RETARDATION SYNDROME;FMR1 GENE; FMR1 NA NA
NA06906 971 M NA NA NIGMS Coriell FXS;FMR1 FRAGILE X MENTAL RETARDATION SYNDROME;FMR1 GENE; FMR1 NA 4;9
NA06907 971 F NA NA NIGMS Coriell FXS;FMR1 FRAGILE X MENTAL RETARDATION SYNDROME;FMR1 GENE; FMR1 NA NA
NA06910 971 F NA NA NIGMS Coriell FXS;FMR1 FRAGILE X MENTAL RETARDATION SYNDROME;FMR1 GENE; FMR1 NA 4
NA06926 972 M NA NA NIGMS Coriell SCA1;ATXN1 SPINOCEREBELLAR ATAXIA 1; SCA1;ATAXIN 1; ATX1 NA NA
NA07063 970 F NA NA NIGMS Coriell FXS;FMR1 FRAGILE X MENTAL RETARDATION SYNDROME;FMR1 GENE; FMR1 NA NA
NA07174 971 M NA NA NIGMS Coriell FXS;FMR1 FRAGILE X MENTAL RETARDATION SYNDROME;FMR1 GENE; FMR1 NA 9
NA07175 971 F NA NA NIGMS Coriell FXS;FMR1 FRAGILE X MENTAL RETARDATION SYNDROME;FMR1 GENE; FMR1 NA NA
NA07294 1011 M NA NA NIGMS Coriell FXS;FMR1 FRAGILE X MENTAL RETARDATION SYNDROME;FMR1 GENE; FMR1 NA 6;8
NA07536 971 M NA NA NIGMS Coriell FXS;FMR1 FRAGILE X MENTAL RETARDATION SYNDROME;FMR1 GENE; FMR1 NA NA
NA07537 971 F NA NA NIGMS Coriell FXS;FMR1 FRAGILE X MENTAL RETARDATION SYNDROME;FMR1 GENE; FMR1 NA NA
NA07538 971 F NA NA NIGMS Coriell FXS;FMR1 FRAGILE X MENTAL RETARDATION SYNDROME;FMR1 GENE; FMR1 NA 9
NA07539 971 M NA NA NIGMS Coriell FXS;FMR1 FRAGILE X MENTAL RETARDATION SYNDROME;FMR1 GENE; FMR1 NA NA
NA07540 971 F NA NA NIGMS Coriell FXS;FMR1 FRAGILE X MENTAL RETARDATION SYNDROME;FMR1 GENE; FMR1 NA NA
NA07541 971 F NA NA NIGMS Coriell FXS;FMR1 FRAGILE X MENTAL RETARDATION SYNDROME;FMR1 GENE; FMR1 NA 4
NA07542 971 M NA NA NIGMS Coriell FXS;FMR1 FRAGILE X MENTAL RETARDATION SYNDROME;FMR1 GENE; FMR1 NA NA
NA07543 971 F NA NA NIGMS Coriell FXS;FMR1 FRAGILE X MENTAL RETARDATION SYNDROME;FMR1 GENE; FMR1 NA NA
NA07730 3249 M NA NA NIGMS Coriell FXS;FMR1 FRAGILE X MENTAL RETARDATION SYNDROME;FMR1 GENE; FMR1 NA NA
NA07862 1082 M NA NA NIGMS Coriell FXS;FMR1 FRAGILE X MENTAL RETARDATION SYNDROME;FMR1 GENE; FMR1;MONOZYGOTIC TWIN PAIRS NA NA
NA09145 970 M NA NA NIGMS Coriell FXS;FMR1 FRAGILE X MENTAL RETARDATION SYNDROME;FMR1 GENE; FMR1 NA 1
NA09237 970 M NA NA NIGMS Coriell FXS;FMR1 FRAGILE X MENTAL RETARDATION SYNDROME;FMR1 GENE; FMR1 NA NA
NA09316 1050 M NA NA NIGMS Coriell FXS;FMR1 FRAGILE X MENTAL RETARDATION SYNDROME;FMR1 GENE; FMR1 NA NA
NA09317 1050 M NA NA NIGMS Coriell FXS;FMR1 FRAGILE X MENTAL RETARDATION SYNDROME;FMR1 GENE; FMR1 NA 6
NA09497 2159 M NA NA NIGMS Coriell FXS;FMR1 FRAGILE X MENTAL RETARDATION SYNDROME;FMR1 GENE; FMR1 NA NA
NA13503 NA F NA NA NIGMS Coriell HD HUNTINGTON DISEASE; HD NA NA
NA13504 NA M NA NA NIGMS Coriell HD HUNTINGTON DISEASE; HD NA NA
NA13505 NA M NA NA NIGMS Coriell HD HUNTINGTON DISEASE; HD NA NA
NA13506 NA M NA NA NIGMS Coriell HD HUNTINGTON DISEASE; HD NA NA
NA13507 NA M NA NA NIGMS Coriell HD HUNTINGTON DISEASE; HD NA NA
NA13508 NA M NA NA NIGMS Coriell HD HUNTINGTON DISEASE; HD NA NA
NA13509 2706 F NA NA NIGMS Coriell HD HUNTINGTON DISEASE; HD NA NA
NA13510 NA M NA NA NIGMS Coriell HD HUNTINGTON DISEASE; HD NA NA
NA13511 NA M NA NA NIGMS Coriell HD HUNTINGTON DISEASE; HD NA NA
NA13512 NA F NA NA NIGMS Coriell HD HUNTINGTON DISEASE; HD NA NA
NA13513 NA F NA NA NIGMS Coriell HD HUNTINGTON DISEASE; HD NA NA
NA13514 NA F NA NA NIGMS Coriell HD HUNTINGTON DISEASE; HD NA NA
NA13515 2707 M NA NA NIGMS Coriell HD HUNTINGTON DISEASE; HD NA NA
NA13536 1617 F NA NA NIGMS Coriell SCA1;ATXN1 SPINOCEREBELLAR ATAXIA 1; SCA1;ATAXIN 1; ATX1 NA 5
NA13537 1617 M NA NA NIGMS Coriell SCA1;ATXN1 SPINOCEREBELLAR ATAXIA 1; SCA1;ATAXIN 1; ATX1 NA 5
NA13716 1635 M NA NA NIGMS Coriell DRPLA;ATN1 DENTATORUBRAL-PALLIDOLUYSIAN ATROPHY; DRPLA;DRPLA GENE; DRPLA NA NA
NA13717 1635 M NA NA NIGMS Coriell DRPLA;ATN1 DENTATORUBRAL-PALLIDOLUYSIAN ATROPHY; DRPLA;DRPLA GENE; DRPLA NA NA
NA14519 1739 F NA NA NIGMS Coriell FRDA;FXN FRIEDREICH ATAXIA 1; FRDA;FRATAXIN; FXN NA NA
NA15847 1842 F NA NA NIGMS Coriell FRDA;FXN FRIEDREICH ATAXIA 1; FRDA;FRATAXIN; FXN NA NA
NA15850 1842 M NA NA NIGMS Coriell FRDA;FXN FRIEDREICH ATAXIA 1; FRDA;FRATAXIN; FXN NA 1;7
NA16197 1912 M NA NA NIGMS Coriell FRDA;FXN FRIEDREICH ATAXIA 1; FRDA;FRATAXIN; FXN NA NA
NA16200 1912 F NA NA NIGMS Coriell FRDA;FXN FRIEDREICH ATAXIA 1; FRDA;FRATAXIN; FXN NA NA
NA16202 1914 F NA NA NIGMS Coriell FRDA;FXN FRIEDREICH ATAXIA 1; FRDA;FRATAXIN; FXN NA NA
NA16203 1914 F NA NA NIGMS Coriell FRDA;FXN FRIEDREICH ATAXIA 1; FRDA;FRATAXIN; FXN NA NA
NA16205 1915 M NA NA NIGMS Coriell FRDA;FXN FRIEDREICH ATAXIA 1; FRDA;FRATAXIN; FXN NA NA
NA16207 NA F NA NA NIGMS Coriell FRDA;FXN FRIEDREICH ATAXIA 1; FRDA;FRATAXIN; FXN NA 1
NA16209 1916 F NA NA NIGMS Coriell FRDA;FXN FRIEDREICH ATAXIA 1; FRDA;FRATAXIN; FXN NA 1;7
NA16212 1917 F NA NA NIGMS Coriell FRDA;FXN FRIEDREICH ATAXIA 1; FRDA;FRATAXIN; FXN NA NA
NA16213 1918 M NA NA NIGMS Coriell FRDA;FXN FRIEDREICH ATAXIA 1; FRDA;FRATAXIN; FXN NA NA
NA16214 1919 M NA NA NIGMS Coriell FRDA;FXN FRIEDREICH ATAXIA 1; FRDA;FRATAXIN; FXN NA NA
NA16215 1919 F NA NA NIGMS Coriell FRDA;FXN FRIEDREICH ATAXIA 1; FRDA;FRATAXIN; FXN NA NA
NA16216 1918 F NA NA NIGMS Coriell FRDA;FXN FRIEDREICH ATAXIA 1; FRDA;FRATAXIN; FXN NA NA
NA16227 1922 F NA NA NIGMS Coriell FRDA;FXN FRIEDREICH ATAXIA 1; FRDA;FRATAXIN; FXN NA NA
NA16228 1922 F NA NA NIGMS Coriell FRDA;FXN FRIEDREICH ATAXIA 1; FRDA;FRATAXIN; FXN NA NA
NA16229 1922 F NA NA NIGMS Coriell FRDA;FXN FRIEDREICH ATAXIA 1; FRDA;FRATAXIN; FXN NA NA
NA16237 1923 F NA NA NIGMS Coriell FRDA;FXN FRIEDREICH ATAXIA 1; FRDA;FRATAXIN; FXN NA NA
NA16240 1924 M NA NA NIGMS Coriell FRDA;FXN FRIEDREICH ATAXIA 1; FRDA;FRATAXIN; FXN NA NA
NA16243 1923 M NA NA NIGMS Coriell FRDA;FXN FRIEDREICH ATAXIA 1; FRDA;FRATAXIN; FXN NA 1
NA20230 NA M NA NA NIGMS Coriell FXS;FMR1 FRAGILE X MENTAL RETARDATION SYNDROME;FMR1 GENE; FMR1 NA 9
NA20231 NA M NA NA NIGMS Coriell FXS;FMR1 FRAGILE X MENTAL RETARDATION SYNDROME;FMR1 GENE; FMR1 NA 9
NA20232 NA M NA NA NIGMS Coriell FXS;FMR1 FRAGILE X MENTAL RETARDATION SYNDROME;FMR1 GENE; FMR1 NA 9
NA20233 NA M NA NA NIGMS Coriell FXS;FMR1 FRAGILE X MENTAL RETARDATION SYNDROME;FMR1 GENE; FMR1 NA 9
NA20234 NA F NA NA NIGMS Coriell FXS;FMR1 FRAGILE X MENTAL RETARDATION SYNDROME;FMR1 GENE; FMR1 NA 9
NA20235 NA F NA NA NIGMS Coriell FXS;FMR1 FRAGILE X MENTAL RETARDATION SYNDROME;FMR1 GENE; FMR1 NA 9
NA20236 NA F NA NA NIGMS Coriell FXS;FMR1 FRAGILE X MENTAL RETARDATION SYNDROME;FMR1 GENE; FMR1 NA 9
NA20237 NA M NA NA NIGMS Coriell FXS;FMR1 FRAGILE X MENTAL RETARDATION SYNDROME;FMR1 GENE; FMR1 NA 9
NA20238 NA F NA NA NIGMS Coriell FXS;FMR1 FRAGILE X MENTAL RETARDATION SYNDROME;FMR1 GENE; FMR1 NA 9
NA20239 NA F NA NA NIGMS Coriell FXS;FMR1 FRAGILE X MENTAL RETARDATION SYNDROME;FMR1 GENE; FMR1 NA 9
NA20240 NA F NA NA NIGMS Coriell FXS;FMR1 FRAGILE X MENTAL RETARDATION SYNDROME;FMR1 GENE; FMR1 NA 9
NA20241 NA F NA NA NIGMS Coriell FXS;FMR1 FRAGILE X MENTAL RETARDATION SYNDROME;FMR1 GENE; FMR1 NA 9
NA20242 NA F NA NA NIGMS Coriell FXS;FMR1 FRAGILE X MENTAL RETARDATION SYNDROME;FMR1 GENE; FMR1 NA 9
NA20243 NA F NA NA NIGMS Coriell FXS;FMR1 FRAGILE X MENTAL RETARDATION SYNDROME;FMR1 GENE; FMR1 NA 9
NA20244 NA M NA NA NIGMS Coriell FXS;FMR1 FRAGILE X MENTAL RETARDATION SYNDROME;FMR1 GENE; FMR1 NA 9
NA23300 NA M NA NA NIGMS Coriell DM1 DYSTROPHIA MYOTONICA 1; DM1 NA 3
NA06151 936 M PORTUGUESE NA NIGMS Coriell MJD / SCA3;ATXN3 MACHADO-JOSEPH DISEASE; MJD;ATAXIN 3; ATXN3 NA NA

Footnotes

* The sample with the MTHFR mutation (NA03756) is also affected with DM1

References

  1. Greene, et al (2007) Repeat-induced epigenetic changes in intron 1 of the frataxin gene and its consequences in Friedreich ataxia. Nucleic Acids Res. 35(10):3383-90. 10.1093/nar/gkm271
  2. Kalman, et al (2007) Development of genomic reference materials for Huntington disease genetic testing. Genet Med. 9(10):719-23. doi:10.1097/GIM.0b013e318156e8c1
  3. Kalman, et al (2013) Development of a genomic DNA reference material panel for myotonic dystrophy type 1 (DM1) genetic testing. J Mol Diagn. 15(4):518-25. doi:10.1016/j.jmoldx.2013.03.008
  4. O'Connell, et al (2002) Standardization of PCR amplification for fragile X trinucleotide repeat measurements. Clin Genet. 61(1):13-20. doi:10.1034/j.1399-0004.2002.610103.x
  5. Orr, et al (1993) Expansion of an unstable trinucleotide CAG repeat in spinocerebellar ataxia type 1. Nat Genet. 4(3):221-6. doi:10.1038/ng0793-221
  6. Pieretti, et al (1991) Absence of expression of the FMR-1 gene in fragile X syndrome. Cell 66(4):817-22. doi:10.1016/0092-8674(91)90125-I
  7. Punga, et al (2010) Long intronic GAA repeats causing Friedreich ataxia impede transcription elongation. EMBO Mol Med. 2(4):120-9. doi:10.1002/emmm.201000064
  8. Verkerk, et al (1991) Identification of a gene (FMR-1) containing a CGG repeat coincident with a breakpoint cluster region exhibiting length variation in fragile X syndrome. Cell. 65(5):905-14. doi:10.1016/0092-8674(91)90397-H
  9. Wilson, et al (2008) Consensus characterization of 16 FMR1 reference materials: a consortium study. J Mol Diagn. 10(1):2-12. doi: 10.2353/jmoldx.2008.070105
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