Research Topics
Genomes and Genes | Michael SeldinSummaryAffiliation: University of California Country: USA Publications
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Publications
PTPN22 genetic variation: evidence for multiple variants associated with rheumatoid arthritisVictoria E H Carlton
Celera Diagnostics, Alameda, CA 94502, USA
Am J Hum Genet 77:567-81. 2005..Additional analyses identified two SNPs on a single common haplotype that are associated with RA independent of R620W, suggesting that R620W and at least one additional variant in the PTPN22 gene region influence RA susceptibility...- Data for Genetic Analysis Workshop 16 Problem 1, association analysis of rheumatoid arthritis dataChristopher I Amos
Departments of Epidemiology and Biomathematics, University of Texas, MD Anderson Cancer Center, 1155 Pressler Street, Houston, Texas 77030, USA
BMC Proc 3:S2. 2009..Several questions could be addressed using the data, including analysis of genetic associations using single SNPs or haplotypes, as well as gene-gene and genetic analysis of SNPs for qualitative and quantitative factors... - Data for Genetic Analysis Workshop (GAW) 15 Problem 2, genetic causes of rheumatoid arthritis and associated traitsChristopher I Amos
Departments of Epidemiology and Biomathematics, University of Texas, Anderson Cancer Center, 1155 Pressler Street, Unit 1340, Houston, Texas 77030, USA
BMC Proc 1:S3. 2007.... - An ancestry informative marker set for determining continental origin: validation and extension using human genome diversity panelsRami Nassir
Rowe Program in Human Genetics, Departments of Biochemistry and Medicine, University of California Davis, Davis, CA 95616, USA
BMC Genet 10:39. 2009..Previously, we described a panel of 128 SNP AIMs that were designed as a tool for ascertaining the origins of subjects from Europe, Sub-Saharan Africa, Americas, and East Asia... - Putative ancestral origins of chromosomal segments in individual african americans: implications for admixture mappingMichael F Seldin
Rowe Program in Human Genetics, Departments of Biological Chemistry and Medicine, University of California at Davis, Davis, California 95616 8669, USA
Genome Res 14:1076-84. 2004..These studies suggest that admixture mapping in the African American population can provide a powerful approach to defining genetic factors for some disease phenotypes... - Argentine population genetic structure: large variance in Amerindian contributionMichael F Seldin
Rowe Program in Human Genetics, Department of Biological Chemistry, University of California Davis, Davis, CA 95616, USA
Am J Phys Anthropol 132:455-62. 2007..In addition, the large variance in admixture proportions in individual Argentine subjects shown by this study suggests that this population is appropriate for future admixture mapping studies... - European population substructure: clustering of northern and southern populationsMichael F Seldin
Rowe Program in Human Genetics, Departments of Biological Chemistry and Medicine, University of California Davis, Davis, California, United States of America
PLoS Genet 2:e143. 2006..Based on this work, we have developed a core set of informative SNP markers that can control for this partition in European population structure in a variety of clinical and genetic studies... - Admixture mapping as a tool in gene discoveryMichael F Seldin
Rowe Program in Human Genetics, Departments of Biochemistry and Medicine, Room 4453, Tupper Hall Department of Biological Chemistry, One Shields Avenue, University of California, Davis, CA 95616, USA
Curr Opin Genet Dev 17:177-81. 2007.... - New approaches to disease mapping in admixed populationsMichael F Seldin
Department of Biochemistry and Molecular Medicine, University of California Davis, Davis, California, USA
Nat Rev Genet 12:523-8. 2011.... - Application of ancestry informative markers to association studies in European AmericansMichael F Seldin
Department of Biochemistry, University of California Davis, Davis, California, United States of America
PLoS Genet 4:e5. 2008 
Examination of ancestry and ethnic affiliation using highly informative diallelic DNA markers: application to diverse and admixed populations and implications for clinical epidemiology and forensic medicineNan Yang
Rowe Program in Human Genetics, Departments of Biological Chemistry and Medicine, University of California, One Shields Avenue, Davis, CA, 95616 8669, USA
Hum Genet 118:382-92. 2005..99). Overall, the study demonstrates that AIMs can provide a useful adjunct to forensic medicine, pharmacogenomics and disease studies in which major ancestry or ethnic affiliation might be linked to specific outcomes...
Amerindian ancestry in Argentina is associated with increased risk for systemic lupus erythematosusM F Seldin
Rowe Program in Human Genetics, Departments of Biological Chemistry and Medicine, University of California Davis, Davis, CA, USA
Genes Immun 9:389-93. 2008..These studies suggest that populations with Amerindian admixture, like those with West African admixture, should be considered in future studies to identify additional allelic variants that predispose to SLE...- Finnish case-control and family studies support PTPN22 R620W polymorphism as a risk factor in rheumatoid arthritis, but suggest only minimal or no effect in juvenile idiopathic arthritisM F Seldin
Rowe Program in Genetics, Departments of Biochemistry and Medicine, University of California Davis, Davis, CA, USA
Genes Immun 6:720-2. 2005..27-1.70, P=3 x 10(-7)) and in family studies (P<10(-6)). In contrast, no allelic association was seen with JIA (230 probands) and only weak evidence for a genotypic effect of 1858T homozygotes was observed in this population... - Analysis of MHC region genetics in Finnish patients with juvenile idiopathic arthritis: evidence for different locus-specific effects in polyarticular vs pauciarticular subsets and a shared DRB1 epitopeJ A Runstadler
Rowe Program in Human Genetics and Molecular Medicine, Department of Biological Chemistry, University of California, Davis, USA
Genes Immun 4:326-35. 2003..00001). Analysis strongly suggests that the difference is because of additional JIA susceptibility loci within the MHC being present in polyarticular RF negative patients... - Primary biliary cirrhosis and autoimmunity: evaluating the genetic riskM E Gershwin
Division of Rheumatology, Allergy and Clinical Immunology, School of Medicine, University of California at Davis, Davis, CA, USA
Isr Med Assoc J 2:7-10. 2000..In this review we place these concepts in perspective and highlight in particular the genetic associations in primary biliary cirrhosis... - HLA-DRB1, TAP2/TAP1, and HLA-DPB1 haplotypes in Finnish juvenile idiopathic arthritis: more complexity within the MHCJ A Runstadler
Rowe Program in Human Genetics and Molecular Medicine, Department of Biological Chemistry, University of California, Davis 95616, USA
Genes Immun 5:562-71. 2004..This observation may have implications for functional etiological differences between the pauciarticular and polyarticular JIA patients... - Molecular cloning and characterization of the human and mouse UDP-glucose dehydrogenase genesA P Spicer
Rowe Program in Human Genetics and Molecular Medicine, Department of Biological Chemistry, School of Medicine, Tupper Hall, University of California, Davis, California 95616, USA
J Biol Chem 273:25117-24. 1998.... - Smoking interacts with genetic risk factors in the development of rheumatoid arthritis among older Caucasian womenL A Criswell
Rosalind Russell Medical Research Center for Arthritis, Department of Medicine, University of California, San Francisco, CA, USA
Ann Rheum Dis 65:1163-7. 2006..To determine whether the impact of tobacco exposure on rheumatoid arthritis (RA) risk is influenced by polymorphisms at the HLA-DRB1 and glutathione S-transferase M1 (GSTM1) loci... - Telomere length regulation in mice is linked to a novel chromosome locusL Zhu
Rowe Program in Genetics, Departments of Biological Chemistry and Medicine University of California, Davis, Davis, CA 95616, USA
Proc Natl Acad Sci U S A 95:8648-53. 1998..This locus is distinct from candidate genes encoding known telomere-binding proteins or telomerase components. These results demonstrate that an unidentified gene(s) mapped to distal chromosome 2 regulates telomere length in the mouse... - Association of angiotensin-converting enzyme polymorphisms with systemic lupus erythematosus and nephritis: analysis of 644 SLE familiesA Parsa
Division of Nephrology, Department of Medicine, University of California, San Francisco, CA, USA
Genes Immun 3:S42-6. 2002..010). Due to the choice of study design and analytic method these results are unlikely to be due to population admixture. Our findings suggest that DNA sequence variation in the ACE gene influences the risk of developing SLE and LN... - Supervised machine learning and logistic regression identifies novel epistatic risk factors with PTPN22 for rheumatoid arthritisF B S Briggs
University of California, Berkeley, 94720, USA
Genes Immun 11:199-208. 2010..A total of seven replicating epistatic interactions were identified. SNP variants within CDH13, MYO3A, CEP72 and near WFDC1 showed significant evidence for interaction with PTPN22, affecting susceptibility to RA... - Chromosome mapping of the rod photoreceptor cGMP phosphodiesterase beta-subunit gene in mouse and human: tight linkage to the Huntington disease region (4p16.3)M R Altherr
Department of Biological Chemistry, University of California, Irvine 92717
Genomics 12:750-4. 1992..Linkage of the mouse Pdeb locus with other homologues in the human 4p16.3 region is maintained but gene order is not, suggesting at least three possible sites for the corresponding mouse HD gene... - The Fcgamma receptor IIIA-158F allele is a major risk factor for the development of lupus nephritis among Caucasians but not non-CaucasiansV A Seligman
Rosalind Russell Medical Research Center for Arthritis, University of California, San Francisco, USA
Arthritis Rheum 44:618-25. 2001..To determine whether inheritance of Fcgamma receptor (FcgammaR) alleles conferring lower affinity for IgG binding increases the risk of developing lupus nephritis... - Mapping of two mouse membrane-type matrix metalloproteinase (MT-MMP) genes, Mmp15 and Mmp16, to mouse chromosomes 8 and 4, respectivelyM F Seldin
Department of Biological Chemistry, University of California, Davis, USA
Genomics 50:295-7. 1998 - Renin-angiotensin system gene polymorphisms predict the progression to renal insufficiency among Asians with lupus nephritisA Parsa
Division of Nephrology, University of California, San Francisco, CA 94143 0500, USA
Genes Immun 6:217-24. 2005..005) and Atg M235T (P=0.04) polymorphisms, and GFR analyzed as a continuous variable among Asians. These findings suggest a significant role for ACE and Atg gene sequence variation and severity of LN among Asians with SLE... - Chromosomal mapping of Adam9, Adam15 and Adam21M F Seldin
Rowe Program in Genetics, Departments of Biological Chemistry and Medicine, University of California Davis, 956161, USA
Matrix Biol 19:185-7. 2000..The mapping of these mouse loci and the extrapolated loci for their human orthologs may facilitate the mapping of diseases involving these genes... - Chromosomal mapping of the tankyrase gene in human and mouseL Zhu
Rowe Program in Genetics, Department of Biological Chemistry and Department of Medicine, University of California at Davis, Davis, California 95616, USA
Genomics 57:320-1. 1999 - STAT4 and the risk of rheumatoid arthritis and systemic lupus erythematosusElaine F Remmers
National Institute of Arthritis and Musculoskeletal and Skin Diseases, Bethesda, MD, USA
N Engl J Med 357:977-86. 2007..Rheumatoid arthritis is a chronic inflammatory disease with a substantial genetic component. Susceptibility to disease has been linked with a region on chromosome 2q... - Two independent alleles at 6q23 associated with risk of rheumatoid arthritisRobert M Plenge
Program in Medical and Population Genetics, Broad Institute of Harvard and Massachusetts Institute of Technology, Cambridge, Massachusetts 02142, USA
Nat Genet 39:1477-82. 2007..We show that these two SNP associations are statistically independent, are each reproducible in the comparison of our data and WTCCC data, and define risk and protective haplotypes for rheumatoid arthritis at 6q23... - Genome-wide association scan in women with systemic lupus erythematosus identifies susceptibility variants in ITGAM, PXK, KIAA1542 and other lociJohn B Harley
Oklahoma Medical Research Foundation, 825 NE 13th Street, Oklahoma City, Oklahoma 73104, USA
Nat Genet 40:204-10. 2008..Our results show that numerous genes, some with known immune-related functions, predispose to SLE... - Ethnic-difference markers for use in mapping by admixture linkage disequilibriumHeather E Collins-Schramm
Rowe Program in Human Genetics, Department of Biological Chemistry and Medicine, University of California at Davis, Davis, CA 95616-8669, USA
Am J Hum Genet 70:737-50. 2002..Taken together, these data suggest that EDMs with large interpopulation and small intrapopulation differences can be readily identified for MALD studies in both AA and MA populations... - Several regions in the major histocompatibility complex confer risk for anti-CCP-antibody positive rheumatoid arthritis, independent of the DRB1 locusHye Soon Lee
The Feinstein Institute for Medical Research, North Shore LIJ Health System, Manhasset, New York 11030, United States of America
Mol Med 14:293-300. 2008..These data emphasize that further analysis of the MHC is likely to reveal genetic risk factors for rheumatoid arthritis that are independent of the DRB1 shared epitope alleles... - A missense single-nucleotide polymorphism in a gene encoding a protein tyrosine phosphatase (PTPN22) is associated with rheumatoid arthritisAnn B Begovich
Celera Diagnostics, Alameda, CA 94502, USA
Am J Hum Genet 75:330-7. 2004..The minor allele of this SNP recently was implicated in type 1 diabetes, suggesting that the variant phosphatase may increase overall reactivity of the immune system and may heighten an individual carrier's risk for autoimmune disease... - The inflammatory disease-associated variants in IL12B and IL23R are not associated with rheumatoid arthritisMonica Chang
Celera, Alameda, CA, USA
Arthritis Rheum 58:1877-81. 2008 - Specificity of the STAT4 genetic association for severe disease manifestations of systemic lupus erythematosusKimberly E Taylor
Rosalind Russell Medical Research Center for Arthritis, University of California San Francisco, California, USA
PLoS Genet 4:e1000084. 2008..We conclude that this common polymorphism of STAT4 contributes to the phenotypic heterogeneity of SLE, predisposing specifically to more severe disease... - A large-scale rheumatoid arthritis genetic study identifies association at chromosome 9q33.2Monica Chang
Celera, Alameda, California, United States of America
PLoS Genet 4:e1000107. 2008..Lastly, in combination with the other two known genetic risk factors, HLA-DRB1 and PTPN22, the variants reported here generate more than a 45-fold RA-risk differential... - Nucleotide excision repair genes and risk of lung cancer among San Francisco Bay Area Latinos and African AmericansJeffrey S Chang
Department of Epidemiology and Biostatistics, University of California, San Francisco, San Francisco, CA, USA
Int J Cancer 123:2095-104. 2008..61; 95% CI: 0.42-0.88). Our study suggests different elements of the NER pathway may be important in the different ethnic groups resulting either from different linkage relationship, genetic backgrounds and/or exposure histories... - Comparison of statistical methods for estimating genetic admixture in a lung cancer study of African Americans and LatinosMelinda C Aldrich
University of California, San Francisco, Box 2911 Rock Hall, Mission Bay 582, 1550 4th Street, San Francisco, CA 94143 2911, USA
Am J Epidemiol 168:1035-46. 2008..Genetic admixture proportions provide a quantitative measure of ancestry differences among Latinos that can be used in analyses of genetic risk factors... - Common variants at CD40 and other loci confer risk of rheumatoid arthritisSoumya Raychaudhuri
Program in Medical and Population Genetics, Broad Institute of Harvard and Massachusetts Institute of Technology, Cambridge, Massachusetts 02142, USA
Nat Genet 40:1216-23. 2008..1 x 10(-7) overall), CDK6 (rs42041, P = 0.010 replication, P = 4.0 x 10(-6) overall), PRKCQ (rs4750316, P = 0.0078 replication, P = 4.4 x 10(-6) overall), and KIF5A-PIP4K2C (rs1678542, P = 0.0026 replication, P = 8.8 x 10(-8) overall)... - TRAF1-C5 as a risk locus for rheumatoid arthritis--a genomewide studyRobert M Plenge
Broad Institute of Harvard and the Massachusetts Institute of Technology, Cambridge, MA, USA
N Engl J Med 357:1199-209. 2007..We carried out a genomewide association analysis to identify additional genetic loci associated with an increased risk of rheumatoid arthritis... - A genomewide single-nucleotide-polymorphism panel for Mexican American admixture mappingChao Tian
Rowe Program in Human Genetics, Department of Biochemistry, University of California Davis, Davis, CA 95616, USA
Am J Hum Genet 80:1014-23. 2007..The results will enable studies of type 2 diabetes, rheumatoid arthritis, and other diseases among which epidemiological studies suggest differences in the distribution of ancestry-associated susceptibility... - A hidden Markov modeling approach for admixture mapping based on case-control dataChun Zhang
Departments of Statistics and Medicine and Rowe Program in Human Genetics, University of California, Davis, California 95616, USA
Genet Epidemiol 27:225-39. 2004..Finally, we observed that the genotype-based HMM performs very similarly in power as the haplotype-based HMM when the haplotypes are known and the set of markers is highly informative... - Mexican American ancestry-informative markers: examination of population structure and marker characteristics in European Americans, Mexican Americans, Amerindians and AsiansHeather E Collins-Schramm
Rowe Program in Human Genetics, Department of Biological Chemistry, University of California at Davis, One Shields Avenue, Davis, CA 95616-8669, USA
Hum Genet 114:263-71. 2004..Together, these data provide additional support for the practical application of admixture mapping in the Mexican American population... - Markers informative for ancestry demonstrate consistent megabase-length linkage disequilibrium in the African American populationHeather E Collins-Schramm
Rowe Program in Human Genetics, Departments of Biological Chemistry and Medicine, University of California at Davis, One Shields Avenue, Davis, CA 95616-8669, USA
Hum Genet 113:211-9. 2003..This examination of several genomic segments provides strong evidence that appropriate selection of informative markers is a crucial prerequisite for the application of admixture mapping to the AA population... - Regulation of anti-cyclic citrullinated peptide antibodies in rheumatoid arthritis: contrasting effects of HLA-DR3 and the shared epitope allelesPatricia Irigoyen
North Shore Long Island Jewish Institute for Medical Research, Manhasset, New York 11030, USA
Arthritis Rheum 52:3813-8. 2005..To examine the association between HLA-DRB1 alleles and the production of anti-cyclic citrullinated peptide (anti-CCP) and rheumatoid factor (RF) autoantibodies in patients with rheumatoid arthritis (RA)... - The functional -169T-->C single-nucleotide polymorphism in FCRL3 is not associated with rheumatoid arthritis in white North AmericansXiaolan Hu
Celera Diagnostics, Alameda, CA
Arthritis Rheum 54:1022-5. 2006 - Analysis and application of European genetic substructure using 300 K SNP informationChao Tian
Rowe Program in Human Genetics, University of California Davis, Davis, California, United States of America
PLoS Genet 4:e4. 2008..The results provide further insight into European population genetic substructure and show that this information can be used for improving error rates in association testing of candidate genes and in replication studies of WGA scans... - Dissecting the genetic complexity of the association between human leukocyte antigens and rheumatoid arthritisDamini Jawaheer
Center for Genomics and Human Genetics, North Shore-Long Island Jewish Research Institute, Manhasset, NY, 11030, USA
Am J Hum Genet 71:585-94. 2002.... - A genomewide single-nucleotide-polymorphism panel with high ancestry information for African American admixture mappingChao Tian
Rowe Program in Human Genetics, Department of Biochemistry and Medicine, University of California-Davis, Davis, CA 95616, USA
Am J Hum Genet 79:640-9. 2006..This is particularly important in the application of admixture mapping in complex genetic diseases for which only modest ethnicity risk ratios of relevant susceptibility genes are expected... - The systemic lupus erythematosus-associated PDCD1 polymorphism PD1.3A in lupus nephritisLudmila Prokunina
Uppsala University Uppsala, Sweden
Arthritis Rheum 50:327-8. 2004 - The influence of genetic variation in the HLA-DRB1 and LTA-TNF regions on the response to treatment of early rheumatoid arthritis with methotrexate or etanerceptLindsey A Criswell
Rosalind Russell Medical Research Center for Arthritis, University of California, San Francisco, CA, USA
Arthritis Rheum 50:2750-6. 2004..To examine the roles of specific genetic polymorphisms as predictors of response to treatment of early rheumatoid arthritis (RA)... - Association of SLC11A1 (NRAMP1) with persistent oligoarticular and polyarticular rheumatoid factor-negative juvenile idiopathic arthritis in Finnish patients: haplotype analysis in Finnish familiesJonathan A Runstadler
Davis Rowe Program in Human Genetics, University of California Davis, One Shields Avenue, Davis, CA 95616, USA
Arthritis Rheum 52:247-56. 2005.... - Markers that discriminate between European and African ancestry show limited variation within AfricaHeather E Collins-Schramm
Rowe Program in Human Genetics, Department of Biological Chemistry, University of California at Davis, One Shields Avenue, Davis, CA 95616-8669, USA
Hum Genet 111:566-9. 2002.... - Association of systemic lupus erythematosus with C8orf13-BLK and ITGAM-ITGAXGeoffrey Hom
Genentech, South San Francisco, CA 94080, USA
N Engl J Med 358:900-9. 2008..Alleles of HLA-DRB1, IRF5, and STAT4 are established susceptibility genes; there is strong evidence for the existence of additional risk loci... - Gender and racial differences in rates of total hip replacementFranklin T Hoaglund
J Bone Joint Surg Am 85:569-70; author reply 570-1. 2003 - Gastrointestinal hamartomatous polyposis in Lkb1 heterozygous knockout miceHiroyuki Miyoshi
Institute of Experimental Animal Sciences, Osaka University Medical School, Osaka 565 0871, Japan
Cancer Res 62:2261-6. 2002..Although additional genetic events may be critical in hamartoma and adenocarcinoma development, these data strongly suggest that the initiation of polyposis is not the result of loss of heterozygosity in Lkb1... - Genome-wide meta-analysis for rheumatoid arthritisCarol J Etzel
Department of Epidemiology, UT MD Anderson Cancer Center, 1155 Pressler Street Unit 1340, Houston, TX 77030, USA
Hum Genet 119:634-41. 2006..This procedure provided marginal evidence (P<0.05) of linkage on chromosome 1, 2, 5 and 18, strong evidence (P<0.01) on chromosomes 8 and 16, and overwhelming evidence in the HLA region of chromosome 6... - Punctin, a novel ADAMTS-like molecule, ADAMTSL-1, in extracellular matrixSatoshi Hirohata
Department of Biomedical Engineering, Lerner Research Institute, Cleveland Clinic Foundation, Cleveland, Ohio 44195, USA
J Biol Chem 277:12182-9. 2002..Punctin is the first member of a novel family of ADAMTS-like proteins that may have important functions in the extracellular matrix... - Screening the genome for rheumatoid arthritis susceptibility genes: a replication study and combined analysis of 512 multicase familiesDamini Jawaheer
Center for Genomics and Human Genetics, Manhasset, New York 11030, USA
Arthritis Rheum 48:906-16. 2003..CONCLUSION: These results provide a rational basis for pursuing high-density linkage and association studies of RA in several regions outside of the HLA region, particularly on chromosomes 1p, 1q, and 18q...
Research Grants
- MA Admixture Mapping Development & Application to NIDDMMichael Seldin; Fiscal Year: 2007..Finally, the three strongest signals will be further investigated utilizing a dense set of SNPs in the putative susceptibility regions. ..
- Admixture Mapping Development and Testing in AA SLEMichael Seldin; Fiscal Year: 2009..abstract_text> ..