High-density SNP analysis of 642 Caucasian families with rheumatoid arthritis identifies two new linkage regions on 11p12 and 2q33

C. I. Amos, W. V. Chen, A. Lee, W. Li, M. Kern, R. Lundsten, F. Batliwalla, M. Wener, E. Remmers, D. A. Kastner, L. A. Criswell, Michael F Seldin, Peter K. Gregersen

Research output: Contribution to journalArticle

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Abstract

We have completed a genome wide linkage scan using >5700 informative single-nucleotide polymorphism (SNP) markers (Illumina IV SNP linkage panel) in 642 Caucasian families containing affected sibling pairs with rheumatoid arthritis (RA), ascertained by the North American Rheumatoid Arthritis Consortium. The results show striking new evidence of linkage at chromosomes 2q33 and 11p12 with logarithm of odds (LOD) scores of 3.52 and 3.09, respectively. In addition to a strong and broad linkage interval surrounding the major histocompatibility complex (LOD>16), regions with LOD>2.5 were observed on chromosomes 5 and 10. Additional linkage evidence (LOD scores between 1.46 and 2.35) was also observed on chromosomes 4, 7, 12, 16 and 18. This new evidence for multiple regions of genetic linkage is partly explained by the significantly increased information content of the Illumina IV SNP linkage panel (75.6%) compared with a standard microsatellite linkage panel utilized previously (mean 52.6%). Stratified analyses according to whether or not the sibling pair members showed elevated anticyclic citrullinated peptide titers indicates significant variation in evidence for linkage among strata on chromosomes 4, 5, 6 and 7. Overall, these new linkage data should reinvigorate efforts to utilize positional information to identify susceptibility genes for RA.

Original languageEnglish (US)
Pages (from-to)277-286
Number of pages10
JournalGenes and Immunity
Volume7
Issue number4
DOIs
StatePublished - Jun 2006

Fingerprint

Single Nucleotide Polymorphism
Rheumatoid Arthritis
Chromosomes, Human, Pair 5
Chromosomes, Human, Pair 4
Chromosomes, Human, Pair 7
Chromosomes, Human, Pair 10
Genetic Linkage
Information Storage and Retrieval
Major Histocompatibility Complex
Microsatellite Repeats
Chromosomes
Genome
Peptides
Genes

Keywords

  • Genetic linkage analysis
  • Rheumatoid arthritis
  • Single-nucleotide polymorphisms
  • Stratified analysis

ASJC Scopus subject areas

  • Genetics(clinical)
  • Immunology
  • Genetics

Cite this

High-density SNP analysis of 642 Caucasian families with rheumatoid arthritis identifies two new linkage regions on 11p12 and 2q33. / Amos, C. I.; Chen, W. V.; Lee, A.; Li, W.; Kern, M.; Lundsten, R.; Batliwalla, F.; Wener, M.; Remmers, E.; Kastner, D. A.; Criswell, L. A.; Seldin, Michael F; Gregersen, Peter K.

In: Genes and Immunity, Vol. 7, No. 4, 06.2006, p. 277-286.

Research output: Contribution to journalArticle

Amos, CI, Chen, WV, Lee, A, Li, W, Kern, M, Lundsten, R, Batliwalla, F, Wener, M, Remmers, E, Kastner, DA, Criswell, LA, Seldin, MF & Gregersen, PK 2006, 'High-density SNP analysis of 642 Caucasian families with rheumatoid arthritis identifies two new linkage regions on 11p12 and 2q33', Genes and Immunity, vol. 7, no. 4, pp. 277-286. https://doi.org/10.1038/sj.gene.6364295
Amos, C. I. ; Chen, W. V. ; Lee, A. ; Li, W. ; Kern, M. ; Lundsten, R. ; Batliwalla, F. ; Wener, M. ; Remmers, E. ; Kastner, D. A. ; Criswell, L. A. ; Seldin, Michael F ; Gregersen, Peter K. / High-density SNP analysis of 642 Caucasian families with rheumatoid arthritis identifies two new linkage regions on 11p12 and 2q33. In: Genes and Immunity. 2006 ; Vol. 7, No. 4. pp. 277-286.
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