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Uncovering the Genomic Origins of Life.

Lake JA, Larsen J, Tran DT, Sinsheimer JS.

Genome Biol Evol. 2018 Jul 1;10(7):1705-1714. doi: 10.1093/gbe/evy129.


Activity of Genes with Functions in Human Williams-Beuren Syndrome Is Impacted by Mobile Element Insertions in the Gray Wolf Genome.

vonHoldt BM, Ji SS, Aardema ML, Stahler DR, Udell MAR, Sinsheimer JS.

Genome Biol Evol. 2018 Jun 1;10(6):1546-1553. doi: 10.1093/gbe/evy112.


Integration of human adipocyte chromosomal interactions with adipose gene expression prioritizes obesity-related genes from GWAS.

Pan DZ, Garske KM, Alvarez M, Bhagat YV, Boocock J, Nikkola E, Miao Z, Raulerson CK, Cantor RM, Civelek M, Glastonbury CA, Small KS, Boehnke M, Lusis AJ, Sinsheimer JS, Mohlke KL, Laakso M, Pajukanta P, Ko A.

Nat Commun. 2018 Apr 17;9(1):1512. doi: 10.1038/s41467-018-03554-9.


NFE2L2, PPARGC1α, and pesticides and Parkinson's disease risk and progression.

Paul KC, Sinsheimer JS, Cockburn M, Bronstein JM, Bordelon Y, Ritz B.

Mech Ageing Dev. 2018 Jul;173:1-8. doi: 10.1016/j.mad.2018.04.004. Epub 2018 Apr 6.


Filtering nucleotide sites by phylogenetic signal to noise ratio increases confidence in the Neoaves phylogeny generated from ultraconserved elements.

Gilbert PS, Wu J, Simon MW, Sinsheimer JS, Alfaro ME.

Mol Phylogenet Evol. 2018 Sep;126:116-128. doi: 10.1016/j.ympev.2018.03.033. Epub 2018 Apr 4.


Understanding Adult Participant and Parent Empowerment Prior to Evaluation in the Undiagnosed Diseases Network.

Palmer CGS, McConkie-Rosell A, Holm IA, LeBlanc K, Sinsheimer JS, Briere LC, Dorrani N, Herzog MR, Lincoln S, Schoch K, Spillmann RC, Brokamp E; Undiagnosed Diseases Network.

J Genet Couns. 2018 Mar 1. doi: 10.1007/s10897-018-0228-6. [Epub ahead of print]


Bilingual Cancer Genetic Education Modules for the Deaf Community: Development and Evaluation of the Online Video Material.

Boudreault P, Wolfson A, Berman B, Venne VL, Sinsheimer JS, Palmer C.

J Genet Couns. 2018 Apr;27(2):457-469. doi: 10.1007/s10897-017-0188-2. Epub 2017 Dec 20.


Dopamine receptors and BDNF-haplotypes predict dyskinesia in Parkinson's disease.

Kusters CDJ, Paul KC, Guella I, Bronstein JM, Sinsheimer JS, Farrer MJ, Ritz BR.

Parkinsonism Relat Disord. 2018 Feb;47:39-44. doi: 10.1016/j.parkreldis.2017.11.339. Epub 2017 Nov 24.


Structural variants in genes associated with human Williams-Beuren syndrome underlie stereotypical hypersociability in domestic dogs.

vonHoldt BM, Shuldiner E, Koch IJ, Kartzinel RY, Hogan A, Brubaker L, Wanser S, Stahler D, Wynne CDL, Ostrander EA, Sinsheimer JS, Udell MAR.

Sci Adv. 2017 Jul 19;3(7):e1700398. doi: 10.1126/sciadv.1700398. eCollection 2017 Jul.


Organophosphate pesticides and PON1 L55M in Parkinson's disease progression.

Paul KC, Sinsheimer JS, Cockburn M, Bronstein JM, Bordelon Y, Ritz B.

Environ Int. 2017 Oct;107:75-81. doi: 10.1016/j.envint.2017.06.018. Epub 2017 Jul 6.


Association of genetic variation in the tachykinin receptor 3 locus with hot flashes and night sweats in the Women's Health Initiative Study.

Crandall CJ, Manson JE, Hohensee C, Horvath S, Wactawski-Wende J, LeBlanc ES, Vitolins MZ, Nassir R, Sinsheimer JS.

Menopause. 2017 Mar;24(3):252-261. doi: 10.1097/GME.0000000000000763.


Human Birth Weight and Reproductive Immunology: Testing for Interactions between Maternal and Offspring KIR and HLA-C Genes.

Clark MM, Chazara O, Sobel EM, Gjessing HK, Magnus P, Moffett A, Sinsheimer JS.

Hum Hered. 2016;81(4):181-193. doi: 10.1159/000456033. Epub 2017 Feb 18.


Gene-Environment Interaction in Parkinson's Disease: Coffee, ADORA2A, and CYP1A2.

Chuang YH, Lill CM, Lee PC, Hansen J, Lassen CF, Bertram L, Greene N, Sinsheimer JS, Ritz B.

Neuroepidemiology. 2016;47(3-4):192-200. doi: 10.1159/000450855. Epub 2016 Jan 31.


Bayesian nonparametric clustering in phylogenetics: modeling antigenic evolution in influenza.

Cybis GB, Sinsheimer JS, Bedford T, Rambaut A, Lemey P, Suchard MA.

Stat Med. 2018 Jan 30;37(2):195-206. doi: 10.1002/sim.7196. Epub 2017 Jan 18.


Vitamin D receptor gene polymorphisms and cognitive decline in Parkinson's disease.

Gatto NM, Paul KC, Sinsheimer JS, Bronstein JM, Bordelon Y, Rausch R, Ritz B.

J Neurol Sci. 2016 Nov 15;370:100-106. doi: 10.1016/j.jns.2016.09.013. Epub 2016 Sep 11.


Gene-environment interactions linking air pollution and inflammation in Parkinson's disease.

Lee PC, Raaschou-Nielsen O, Lill CM, Bertram L, Sinsheimer JS, Hansen J, Ritz B.

Environ Res. 2016 Nov;151:713-720. doi: 10.1016/j.envres.2016.09.006. Epub 2016 Sep 16.


Genetic analysis of hyperemesis gravidarum reveals association with intracellular calcium release channel (RYR2).

Fejzo MS, Myhre R, Colodro-Conde L, MacGibbon KW, Sinsheimer JS, Reddy MVPL, Pajukanta P, Nyholt DR, Wright MJ, Martin NG, Engel SM, Medland SE, Magnus P, Mullin PM.

Mol Cell Endocrinol. 2017 Jan 5;439:308-316. doi: 10.1016/j.mce.2016.09.017. Epub 2016 Sep 20.


Bilingual approach to online cancer genetics education for Deaf American Sign Language users produces greater knowledge and confidence than English text only: A randomized study.

Palmer CG, Boudreault P, Berman BA, Wolfson A, Duarte L, Venne VL, Sinsheimer JS.

Disabil Health J. 2017 Jan;10(1):23-32. doi: 10.1016/j.dhjo.2016.07.002. Epub 2016 Jul 28.


The concerted impact of domestication and transposon insertions on methylation patterns between dogs and grey wolves.

Janowitz Koch I, Clark MM, Thompson MJ, Deere-Machemer KA, Wang J, Duarte L, Gnanadesikan GE, McCoy EL, Rubbi L, Stahler DR, Pellegrini M, Ostrander EA, Wayne RK, Sinsheimer JS, vonHoldt BM.

Mol Ecol. 2016 Apr;25(8):1838-55. doi: 10.1111/mec.13480. Epub 2016 Jan 18.


APOE, MAPT, and COMT and Parkinson's Disease Susceptibility and Cognitive Symptom Progression.

Paul KC, Rausch R, Creek MM, Sinsheimer JS, Bronstein JM, Bordelon Y, Ritz B.

J Parkinsons Dis. 2016 Apr 2;6(2):349-59. doi: 10.3233/JPD-150762.



Cybis GB, Sinsheimer JS, Bedford T, Mather AE, Lemey P, Suchard MA.

Ann Appl Stat. 2015 Jun;9(2):969-991.


Rings Reconcile Genotypic and Phenotypic Evolution within the Proteobacteria.

Lake JA, Larsen J, Sarna B, de la Haba RR, Pu Y, Koo H, Zhao J, Sinsheimer JS.

Genome Biol Evol. 2016 Mar 10;8(3):578. doi: 10.1093/gbe/evw030. No abstract available.


Rings Reconcile Genotypic and Phenotypic Evolution within the Proteobacteria.

Lake JA, Larsen J, Sarna B, de la Haba RR, Pu Y, Koo H, Zhao J, Sinsheimer JS.

Genome Biol Evol. 2015 Dec 10;7(12):3434-42. doi: 10.1093/gbe/evv221. Erratum in: Genome Biol Evol. 2016 Mar;8(3):578.


Multilevel analysis of neuropathogenesis of neurocognitive impairment in HIV.

Levine AJ, Soontornniyomkij V, Achim CL, Masliah E, Gelman BB, Sinsheimer JS, Singer EJ, Moore DJ.

J Neurovirol. 2016 Aug;22(4):431-41. doi: 10.1007/s13365-015-0410-7. Epub 2015 Dec 4.


The Quantitative-MFG Test: A Linear Mixed Effect Model to Detect Maternal-Offspring Gene Interactions.

Clark MM, Blangero J, Dyer TD, Sobel EM, Sinsheimer JS.

Ann Hum Genet. 2016 Jan;80(1):63-80. doi: 10.1111/ahg.12137. Epub 2015 Nov 15.


Genetic variability in ABCB1, occupational pesticide exposure, and Parkinson's disease.

Narayan S, Sinsheimer JS, Paul KC, Liew Z, Cockburn M, Bronstein JM, Ritz B.

Environ Res. 2015 Nov;143(Pt A):98-106. doi: 10.1016/j.envres.2015.08.022. Epub 2015 Oct 19.


Organophosphate Pesticide Exposures, Nitric Oxide Synthase Gene Variants, and Gene-Pesticide Interactions in a Case-Control Study of Parkinson's Disease, California (USA).

Paul KC, Sinsheimer JS, Rhodes SL, Cockburn M, Bronstein J, Ritz B.

Environ Health Perspect. 2016 May;124(5):570-7. doi: 10.1289/ehp.1408976. Epub 2015 Sep 18.


Cumulative effects of common genetic variants on risk of sudden cardiac death.

Huertas-Vazquez A, Nelson CP, Sinsheimer JS, Reinier K, Uy-Evanado A, Teodorescu C, Ayala J, Hall AS, Gunson K, Jui J, Samani NJ, Chugh SS.

Int J Cardiol Heart Vasc. 2015 Jun 1;7:88-91.


Genome-wide ultraconserved elements exhibit higher phylogenetic informativeness than traditional gene markers in percomorph fishes.

Gilbert PS, Chang J, Pan C, Sobel EM, Sinsheimer JS, Faircloth BC, Alfaro ME.

Mol Phylogenet Evol. 2015 Nov;92:140-6. doi: 10.1016/j.ympev.2015.05.027. Epub 2015 Jun 12.


Vitamin D receptor gene polymorphisms and Parkinson's disease in a population with high ultraviolet radiation exposure.

Gatto NM, Sinsheimer JS, Cockburn M, Escobedo LA, Bordelon Y, Ritz B.

J Neurol Sci. 2015 May 15;352(1-2):88-93. doi: 10.1016/j.jns.2015.03.043. Epub 2015 Apr 7.


Acceleration of age-associated methylation patterns in HIV-1-infected adults.

Rickabaugh TM, Baxter RM, Sehl M, Sinsheimer JS, Hultin PM, Hultin LE, Quach A, Martínez-Maza O, Horvath S, Vilain E, Jamieson BD.

PLoS One. 2015 Mar 25;10(3):e0119201. doi: 10.1371/journal.pone.0119201. eCollection 2015.


Impact of genetic counseling and Connexin-26 and Connexin-30 testing on deaf identity and comprehension of genetic test results in a sample of deaf adults: a prospective, longitudinal study.

Palmer CG, Boudreault P, Baldwin EE, Sinsheimer JS.

PLoS One. 2014 Nov 6;9(11):e111512. doi: 10.1371/journal.pone.0111512. eCollection 2014.


Head injury, α-synuclein genetic variability and Parkinson's disease.

Lee PC, Bordelon Y, Bronstein J, Sinsheimer JS, Farrer M, Ritz B.

Eur J Neurol. 2015 May;22(5):874-8. doi: 10.1111/ene.12585. Epub 2014 Nov 5.


Fast and accurate site frequency spectrum estimation from low coverage sequence data.

Han E, Sinsheimer JS, Novembre J.

Bioinformatics. 2015 Mar 1;31(5):720-7. doi: 10.1093/bioinformatics/btu725. Epub 2014 Oct 30.


Next Generation Statistical Genetics: Modeling, Penalization, and Optimization in High-Dimensional Data.

Lange K, Papp JC, Sinsheimer JS, Sobel EM.

Annu Rev Stat Appl. 2014 Jan 1;1(1):279-300.


Feminized behavior and brain gene expression in a novel mouse model of Klinefelter Syndrome.

Ngun TC, Ghahramani NM, Creek MM, Williams-Burris SM, Barseghyan H, Itoh Y, Sánchez FJ, McClusky R, Sinsheimer JS, Arnold AP, Vilain E.

Arch Sex Behav. 2014 Aug;43(6):1043-57. doi: 10.1007/s10508-014-0316-0. Epub 2014 Jun 13.


Association of LOXL1 polymorphisms with pseudoexfoliation, glaucoma, intraocular pressure, and systemic diseases in a Greek population. The Thessaloniki eye study.

Anastasopoulos E, Coleman AL, Wilson MR, Sinsheimer JS, Yu F, Katafigiotis S, Founti P, Salonikiou A, Pappas T, Koskosas A, Katopodi T, Lambropoulos A, Topouzis F.

Invest Ophthalmol Vis Sci. 2014 Jun 10;55(7):4238-43. doi: 10.1167/iovs.14-13991.


Amerindian-specific regions under positive selection harbour new lipid variants in Latinos.

Ko A, Cantor RM, Weissglas-Volkov D, Nikkola E, Reddy PM, Sinsheimer JS, Pasaniuc B, Brown R, Alvarez M, Rodriguez A, Rodriguez-Guillen R, Bautista IC, Arellano-Campos O, Muñoz-Hernández LL, Salomaa V, Kaprio J, Jula A, Jauhiainen M, Heliövaara M, Raitakari O, Lehtimäki T, Eriksson JG, Perola M, Lohmueller KE, Matikainen N, Taskinen MR, Rodriguez-Torres M, Riba L, Tusie-Luna T, Aguilar-Salinas CA, Pajukanta P.

Nat Commun. 2014 Jun 2;5:3983. doi: 10.1038/ncomms4983.


Regulation of sex determination in mice by a non-coding genomic region.

Arboleda VA, Fleming A, Barseghyan H, Délot E, Sinsheimer JS, Vilain E.

Genetics. 2014 Jul;197(3):885-97. doi: 10.1534/genetics.113.160259. Epub 2014 May 2.


The longitudinal and interactive effects of HIV status, stimulant use, and host genotype upon neurocognitive functioning.

Levine AJ, Reynolds S, Cox C, Miller EN, Sinsheimer JS, Becker JT, Martin E, Sacktor N; Neuropsychology Working Group of the Multicenter AIDS Cohort Study.

J Neurovirol. 2014 Jun;20(3):243-57. doi: 10.1007/s13365-014-0241-y. Epub 2014 Apr 16.


Characterizing bias in population genetic inferences from low-coverage sequencing data.

Han E, Sinsheimer JS, Novembre J.

Mol Biol Evol. 2014 Mar;31(3):723-35. doi: 10.1093/molbev/mst229. Epub 2013 Nov 27.


The deep roots of the rings of life.

Lake JA, Sinsheimer JS.

Genome Biol Evol. 2013;5(12):2440-8. doi: 10.1093/gbe/evt194.


Using a social marketing framework to evaluate recruitment of a prospective study of genetic counseling and testing for the deaf community.

Kobayashi Y, Boudreault P, Hill K, Sinsheimer JS, Palmer CG.

BMC Med Res Methodol. 2013 Nov 25;13:145. doi: 10.1186/1471-2288-13-145.


Pooled analysis of iron-related genes in Parkinson's disease: association with transferrin.

Rhodes SL, Buchanan DD, Ahmed I, Taylor KD, Loriot MA, Sinsheimer JS, Bronstein JM, Elbaz A, Mellick GD, Rotter JI, Ritz B.

Neurobiol Dis. 2014 Feb;62:172-8. doi: 10.1016/j.nbd.2013.09.019. Epub 2013 Oct 8.


Household organophosphorus pesticide use and Parkinson's disease.

Narayan S, Liew Z, Paul K, Lee PC, Sinsheimer JS, Bronstein JM, Ritz B.

Int J Epidemiol. 2013 Oct;42(5):1476-85. doi: 10.1093/ije/dyt170. Epub 2013 Sep 20.


Pesticides that inhibit the ubiquitin-proteasome system: effect measure modification by genetic variation in SKP1 in Parkinson׳s disease.

Rhodes SL, Fitzmaurice AG, Cockburn M, Bronstein JM, Sinsheimer JS, Ritz B.

Environ Res. 2013 Oct;126:1-8. doi: 10.1016/j.envres.2013.08.001. Epub 2013 Aug 27.


Mendel: the Swiss army knife of genetic analysis programs.

Lange K, Papp JC, Sinsheimer JS, Sripracha R, Zhou H, Sobel EM.

Bioinformatics. 2013 Jun 15;29(12):1568-70. doi: 10.1093/bioinformatics/btt187. Epub 2013 Apr 22.


Functional paraoxonase 1 variants modify the risk of Parkinson's disease due to organophosphate exposure.

Lee PC, Rhodes SL, Sinsheimer JS, Bronstein J, Ritz B.

Environ Int. 2013 Jun;56:42-7. doi: 10.1016/j.envint.2013.03.004. Epub 2013 Apr 16.


Genomic study in Mexicans identifies a new locus for triglycerides and refines European lipid loci.

Weissglas-Volkov D, Aguilar-Salinas CA, Nikkola E, Deere KA, Cruz-Bautista I, Arellano-Campos O, Muñoz-Hernandez LL, Gomez-Munguia L, Ordoñez-Sánchez ML, Reddy PM, Lusis AJ, Matikainen N, Taskinen MR, Riba L, Cantor RM, Sinsheimer JS, Tusie-Luna T, Pajukanta P.

J Med Genet. 2013 May;50(5):298-308. doi: 10.1136/jmedgenet-2012-101461. Epub 2013 Mar 15.


Deaf genetic testing and psychological well-being in deaf adults.

Palmer CG, Boudreault P, Baldwin EE, Fox M, Deignan JL, Kobayashi Y, Sininger Y, Grody W, Sinsheimer JS.

J Genet Couns. 2013 Aug;22(4):492-507. doi: 10.1007/s10897-013-9573-7. Epub 2013 Feb 21.

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