Jonathan L. Haines, PhD - Publications

Affiliations: 
Molecular Physiology and Biophysics Vanderbilt University, Nashville, TN 
Area:
http://www.researchprofiles.collexis.com/jad/expert.asp?u_id=95
Website:
http://kc.vanderbilt.edu/site/people/1461/haines-jonathan.aspx

38 high-probability publications. We are testing a new system for linking publications to authors. You can help! If you notice any inaccuracies, please sign in and mark papers as correct or incorrect matches. If you identify any major omissions or other inaccuracies in the publication list, please let us know.

Year Citation  Score
2020 Wheeler NR, Benchek P, Kunkle BW, Hamilton-Nelson KL, Warfe M, Fondran JR, Haines JL, Bush WS. Hadoop and PySpark for reproducibility and scalability of genomic sequencing studies. Pacific Symposium On Biocomputing. Pacific Symposium On Biocomputing. 25: 523-534. PMID 31797624  0.6
2019 Bis JC, Jian X, Kunkle BW, Chen Y, Hamilton-Nelson KL, Bush WS, Salerno WJ, Lancour D, Ma Y, Renton AE, Marcora E, Farrell JJ, Zhao Y, Qu L, Ahmad S, ... ... Haines JL, et al. Correction: Whole exome sequencing study identifies novel rare and common Alzheimer's-Associated variants involved in immune response and transcriptional regulation. Molecular Psychiatry. PMID 31636380 DOI: 10.1038/s41380-019-0529-7  0.6
2019 Dumitrescu L, Barnes LL, Thambisetty M, Beecham G, Kunkle B, Bush WS, Gifford KA, Chibnik LB, Mukherjee S, De Jager PL, Kukull W, Crane PK, Resnick SM, Keene CD, Montine TJ, ... ... Haines JL, et al. Sex differences in the genetic predictors of Alzheimer's pathology. Brain : a Journal of Neurology. 142: 2581-2589. PMID 31497858 DOI: 10.1093/brain/awz206  0.6
2019 Kunkle BW, Grenier-Boley B, Sims R, Bis JC, Damotte V, Naj AC, Boland A, Vronskaya M, van der Lee SJ, Amlie-Wolf A, Bellenguez C, Frizatti A, Chouraki V, Martin ER, Sleegers K, ... ... Haines JL, et al. Author Correction: Genetic meta-analysis of diagnosed Alzheimer's disease identifies new risk loci and implicates Aβ, tau, immunity and lipid processing. Nature Genetics. PMID 31417202 DOI: 10.1038/s41588-019-0495-7  0.6
2019 Ma Y, Jun GR, Zhang X, Chung J, Naj AC, Chen Y, Bellenguez C, Hamilton-Nelson K, Martin ER, Kunkle BW, Bis JC, Debette S, DeStefano AL, Fornage M, Nicolas G, ... ... Haines JL, et al. Analysis of Whole-Exome Sequencing Data for Alzheimer Disease Stratified by APOE Genotype. Jama Neurology. PMID 31180460 DOI: 10.1001/jamaneurol.2019.1456  0.56
2019 Gardner OK, Wang L, Van Booven D, Whitehead PL, Hamilton-Nelson KL, Adams LD, Starks TD, Hofmann NK, Vance JM, Cuccaro ML, Martin ER, Byrd GS, Haines JL, Bush WS, Beecham GW, et al. RNA editing alterations in a multi-ethnic Alzheimer disease cohort converge on immune and endocytic molecular pathways. Human Molecular Genetics. PMID 31162550 DOI: 10.1093/hmg/ddz110  0.6
2019 Ma Y, Jun GR, Chung J, Zhang X, Kunkle BW, Naj AC, White CC, Bennett DA, De Jager PL, Mayeux R, Haines JL, Pericak-Vance MA, Schellenberg GD, Farrer LA, et al. CpG-related SNPs in the MS4A region have a dose-dependent effect on risk of late-onset Alzheimer disease. Aging Cell. e12964. PMID 31144443 DOI: 10.1111/acel.12964  0.56
2019 Kunkle BW, Grenier-Boley B, Sims R, Bis JC, Damotte V, Naj AC, Boland A, Vronskaya M, van der Lee SJ, Amlie-Wolf A, Bellenguez C, Frizatti A, Chouraki V, Martin ER, Sleegers K, ... ... Haines JL, et al. Genetic meta-analysis of diagnosed Alzheimer's disease identifies new risk loci and implicates Aβ, tau, immunity and lipid processing. Nature Genetics. 51: 414-430. PMID 30820047 DOI: 10.1038/s41588-019-0358-2  0.6
2018 Rajabli F, Feliciano BE, Celis K, Hamilton-Nelson KL, Whitehead PL, Adams LD, Bussies PL, Manrique CP, Rodriguez A, Rodriguez V, Starks T, Byfield GE, Sierra Lopez CB, McCauley JL, Acosta H, ... ... Haines JL, et al. Ancestral origin of ApoE ε4 Alzheimer disease risk in Puerto Rican and African American populations. Plos Genetics. 14: e1007791. PMID 30517106 DOI: 10.1371/journal.pgen.1007791  0.56
2018 Bis JC, Jian X, Kunkle BW, Chen Y, Hamilton-Nelson KL, Bush WS, Salerno WJ, Lancour D, Ma Y, Renton AE, Marcora E, Farrell JJ, Zhao Y, Qu L, Ahmad S, ... ... Haines JL, et al. Whole exome sequencing study identifies novel rare and common Alzheimer's-Associated variants involved in immune response and transcriptional regulation. Molecular Psychiatry. PMID 30108311 DOI: 10.1038/s41380-018-0112-7  0.6
2018 Deming Y, Dumitrescu L, Barnes LL, Thambisetty M, Kunkle B, Gifford KA, Bush WS, Chibnik LB, Mukherjee S, De Jager PL, Kukull W, Huentelman M, Crane PK, Resnick SM, Keene CD, ... ... Haines JL, et al. Sex-specific genetic predictors of Alzheimer's disease biomarkers. Acta Neuropathologica. PMID 29967939 DOI: 10.1007/s00401-018-1881-4  0.6
2018 Hohman TJ, Dumitrescu L, Barnes LL, Thambisetty M, Beecham G, Kunkle B, Gifford KA, Bush WS, Chibnik LB, Mukherjee S, De Jager PL, Kukull W, Crane PK, Resnick SM, Keene CD, ... ... Haines JL, et al. Sex-Specific Association of Apolipoprotein E With Cerebrospinal Fluid Levels of Tau. Jama Neurology. PMID 29801024 DOI: 10.1001/jamaneurol.2018.0821  0.6
2018 Butkiewicz M, Blue E, Leung F, Jian X, Marcora E, Renton A, Kuzma A, Wang LS, Koboldt D, Haines JL, Bush WS. Functional Annotation of genomic variants in studies of Late-Onset Alzheimer's Disease. Bioinformatics (Oxford, England). PMID 29590295 DOI: 10.1093/bioinformatics/bty177  0.6
2017 Kunkle BW, Vardarajan BN, Naj AC, Whitehead PL, Rolati S, Slifer S, Carney RM, Cuccaro ML, Vance JM, Gilbert JR, Wang LS, Farrer LA, Reitz C, Haines JL, Beecham GW, et al. Early-Onset Alzheimer Disease and Candidate Risk Genes Involved in Endolysosomal Transport. Jama Neurology. PMID 28738127 DOI: 10.1001/jamaneurol.2017.1518  0.56
2017 Sims R, van der Lee SJ, Naj AC, Bellenguez C, Badarinarayan N, Jakobsdottir J, Kunkle BW, Boland A, Raybould R, Bis JC, Martin ER, Grenier-Boley B, Heilmann-Heimbach S, Chouraki V, Kuzma AB, ... ... Haines JL, et al. Rare coding variants in PLCG2, ABI3, and TREM2 implicate microglial-mediated innate immunity in Alzheimer's disease. Nature Genetics. PMID 28714976 DOI: 10.1038/ng.3916  0.56
2017 Butkiewicz M, Haines JL, Bush WS. Introducing COCOS: codon consequence scanner for annotating reading frame changes induced by stop-lost and frame shift variants. Bioinformatics (Oxford, England). PMID 28122779 DOI: 10.1093/bioinformatics/btw820  0.6
2016 Cukier HN, Kunkle BW, Vardarajan BN, Rolati S, Hamilton-Nelson KL, Kohli MA, Whitehead PL, Dombroski BA, Van Booven D, Lang R, Dykxhoorn DM, Farrer LA, Cuccaro ML, Vance JM, Gilbert JR, ... ... Haines JL, et al. ABCA7 frameshift deletion associated with Alzheimer disease in African Americans. Neurology. Genetics. 2: e79. PMID 27231719 DOI: 10.1212/NXG.0000000000000079  0.56
2016 Kohli MA, Cukier HN, Hamilton-Nelson KL, Rolati S, Kunkle BW, Whitehead PL, Züchner SL, Farrer LA, Martin ER, Beecham GW, Haines JL, Vance JM, Cuccaro ML, Gilbert JR, Schellenberg GD, et al. Segregation of a rare TTC3 variant in an extended family with late-onset Alzheimer disease. Neurology. Genetics. 2: e41. PMID 27066578 DOI: 10.1212/NXG.0000000000000041  0.56
2016 Bush WS, Crosslin DR, Obeng AO, Wallace J, Almoguera B, Basford MA, Bielinski SJ, Carrell DS, Connolly JJ, Crawford D, Doheny KF, Gallego CJ, Gordon AS, Keating B, Kirby J, ... ... Haines JL, et al. Genetic Variation among 82 Pharmacogenes: the PGRN-Seq data from the eMERGE Network. Clinical Pharmacology and Therapeutics. PMID 26857349 DOI: 10.1002/cpt.350  0.6
2016 Hohman TJ, Bush WS, Jiang L, Brown-Gentry KD, Torstenson ES, Dudek SM, Mukherjee S, Naj A, Kunkle BW, Ritchie MD, Martin ER, Schellenberg GD, Mayeux R, Farrer LA, Pericak-Vance MA, ... Haines JL, et al. Discovery of gene-gene interactions across multiple independent data sets of late onset Alzheimer disease from the Alzheimer Disease Genetics Consortium. Neurobiology of Aging. 38: 141-50. PMID 26827652 DOI: 10.1016/j.neurobiolaging.2015.10.031  0.6
2015 Hall JB, Cooke Bailey JN, Hoffman JD, Pericak-Vance MA, Scott WK, Kovach JL, Schwartz SG, Agarwal A, Brantley MA, Haines JL, Bush WS. Estimating cumulative pathway effects on risk for age-related macular degeneration using mixed linear models. Bmc Bioinformatics. 16: 329. PMID 26467978 DOI: 10.1186/s12859-015-0760-4  0.6
2015 Kunkle BW, Jaworski J, Barral S, Vardarajan B, Beecham GW, Martin ER, Cantwell LS, Partch A, Bird TD, Raskind WH, DeStefano AL, Carney RM, Cuccaro M, Vance JM, Farrer LA, ... ... Haines JL, et al. Genome-wide linkage analyses of non-Hispanic white families identify novel loci for familial late-onset Alzheimer's disease. Alzheimer's & Dementia : the Journal of the Alzheimer's Association. PMID 26365416 DOI: 10.1016/j.jalz.2015.05.020  0.56
2015 Crawford DC, Goodloe R, Farber-Eger E, Boston J, Pendergrass SA, Haines JL, Ritchie MD, Bush WS. Leveraging Epidemiologic and Clinical Collections for Genomic Studies of Complex Traits. Human Heredity. 79: 137-46. PMID 26201699 DOI: 10.1159/000381805  0.6
2015 Mukherjee S, Walter S, Kauwe JS, Saykin AJ, Bennett DA, Larson EB, Crane PK, Glymour MM. Genetically predicted body mass index and Alzheimer's disease-related phenotypes in three large samples: Mendelian randomization analyses. Alzheimer's & Dementia : the Journal of the Alzheimer's Association. PMID 26079416 DOI: 10.1016/j.jalz.2015.05.015  0.56
2015 Hall JB, Cooke Bailey JN, Hoffman JD, Pericak-Vance MA, Scott WK, Kovach JL, Schwartz SG, Agarwal A, Brantley MA, Haines JL, Bush WS. Estimating cumulative pathway effects on risk for age-related macular degeneration using mixed linear models Bmc Bioinformatics. 16. DOI: 10.1186/s12859-015-0760-4  0.6
2015 Crawford DC, Goodloe R, Farber-Eger E, Boston J, Pendergrass SA, Haines JL, Ritchie MD, Bush WS. Leveraging Epidemiologic and Clinical Collections for Genomic Studies of Complex Traits Human Heredity. 79: 137-146. DOI: 10.1159/000381805  0.6
2014 Bush WS, Haines JL. Genotype Correlation Analysis Reveals Pathway-Based Functional Disequilibrium and Potential Epistasis in the Human Interactome. Applications of Evolutionary Computation : 17th European Conference, Evoapplications 2014, Granada, Spain, April 23-25, 2014 : Revised Selected Papers. Evoapplications (Conference) (17th : 2014 : Granada, Spain). 8602: 890-901. PMID 28393142 DOI: 10.1007/978-3-662-45523-4_72  0.6
2014 Naj AC, Jun G, Reitz C, Kunkle BW, Perry W, Park YS, Beecham GW, Rajbhandary RA, Hamilton-Nelson KL, Wang LS, Kauwe JS, Huentelman MJ, Myers AJ, Bird TD, Boeve BF, ... ... Haines JL, et al. Effects of multiple genetic loci on age at onset in late-onset Alzheimer disease: a genome-wide association study. Jama Neurology. 71: 1394-404. PMID 25199842 DOI: 10.1001/jamaneurol.2014.1491  0.56
2014 Crawford DC, Crosslin DR, Tromp G, Kullo IJ, Kuivaniemi H, Hayes MG, Denny JC, Bush WS, Haines JL, Roden DM, McCarty CA, Jarvik GP, Ritchie MD. eMERGEing progress in genomics-the first seven years. Frontiers in Genetics. 5: 184. PMID 24987407 DOI: 10.3389/fgene.2014.00184  0.6
2014 Bush WS, Haines JL. Genotype correlation analysis reveals pathway-based functional disequilibrium and potential epistasis in the human interactome Lecture Notes in Computer Science (Including Subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics). 8602: 890-901. DOI: 10.1007/978-3-662-45523-4_72  0.6
2013 Davis MF, Sriram S, Bush WS, Denny JC, Haines JL. Automated extraction of clinical traits of multiple sclerosis in electronic medical records. Journal of the American Medical Informatics Association : Jamia. 20: e334-40. PMID 24148554 DOI: 10.1136/amiajnl-2013-001999  0.6
2013 Cummings AC, Torstenson E, Davis MF, D'Aoust LN, Scott WK, Pericak-Vance MA, Bush WS, Haines JL. Evaluating power and type 1 error in large pedigree analyses of binary traits. Plos One. 8: e62615. PMID 23658753 DOI: 10.1371/journal.pone.0062615  0.6
2013 Predazzi IM, Rokas A, Deinard A, Schnetz-Boutaud N, Williams ND, Bush WS, Tacconelli A, Friedrich K, Fazio S, Novelli G, Haines JL, Sirugo G, Williams SM. Putting pleiotropy and selection into context defines a new paradigm for interpreting genetic data. Circulation. Cardiovascular Genetics. 6: 299-307. PMID 23616601 DOI: 10.1161/CIRCGENETICS.113.000126  0.6
2012 Hedges DJ, Hamilton-Nelson KL, Sacharow SJ, Nations L, Beecham GW, Kozhekbaeva ZM, Butler BL, Cukier HN, Whitehead PL, Ma D, Jaworski JM, Nathanson L, Lee JM, Hauser SL, Oksenberg JR, ... ... Haines JL, et al. Evidence of novel fine-scale structural variation at autism spectrum disorder candidate loci. Molecular Autism. 3: 2. PMID 22472195 DOI: 10.1186/2040-2392-3-2  0.56
2011 Zuvich RL, Bush WS, McCauley JL, Beecham AH, De Jager PL, Ivinson AJ, Compston A, Hafler DA, Hauser SL, Sawcer SJ, Pericak-Vance MA, Barcellos LF, Mortlock DP, Haines JL. Interrogating the complex role of chromosome 16p13.13 in multiple sclerosis susceptibility: independent genetic signals in the CIITA-CLEC16A-SOCS1 gene complex. Human Molecular Genetics. 20: 3517-24. PMID 21653641 DOI: 10.1093/hmg/ddr250  0.6
2011 Bush WS, McCauley JL, DeJager PL, Dudek SM, Hafler DA, Gibson RA, Matthews PM, Kappos L, Naegelin Y, Polman CH, Hauser SL, Oksenberg J, Haines JL, Ritchie MD. A knowledge-driven interaction analysis reveals potential neurodegenerative mechanism of multiple sclerosis susceptibility. Genes and Immunity. 12: 335-40. PMID 21346779 DOI: 10.1038/gene.2011.3  0.6
2011 Yaspan BL, Bush WS, Torstenson ES, Ma D, Pericak-Vance MA, Ritchie MD, Sutcliffe JS, Haines JL. Genetic analysis of biological pathway data through genomic randomization. Human Genetics. 129: 563-71. PMID 21279722 DOI: 10.1007/s00439-011-0956-2  0.6
2010 Bush WS, Sawcer SJ, de Jager PL, Oksenberg JR, McCauley JL, Pericak-Vance MA, Haines JL. Evidence for polygenic susceptibility to multiple sclerosis--the shape of things to come. American Journal of Human Genetics. 86: 621-5. PMID 20362272 DOI: 10.1016/j.ajhg.2010.02.027  0.6
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