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    Noah Zaitlen, PhD

    TitleAssistant Professor
    SchoolUCSF School of Medicine
    Address1550 4th Street, Bldg 19B
    San Francisco CA 94158
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      Publications listed below are automatically derived from MEDLINE/PubMed and other sources, which might result in incorrect or missing publications. Researchers can login to make corrections and additions, or contact us for help.
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      1. Joshi RS, Garg P, Zaitlen N, Lappalainen T, Watson CT, Azam N, Ho D, Li X, Antonarakis SE, Brunner HG, Buiting K, Cheung SW, Coffee B, Eggermann T, Francis D, Geraedts JP, Gimelli G, Jacobson SG, Le Caignec C, de Leeuw N, Liehr T, Mackay DJ, Montgomery SB, Pagnamenta AT, Papenhausen P, Robinson DO, Ruivenkamp C, Schwartz C, Steiner B, Stevenson DA, Surti U, Wassink T, Sharp AJ. DNA Methylation Profiling of Uniparental Disomy Subjects Provides a Map of Parental Epigenetic Bias in the Human Genome. Am J Hum Genet. 2016 Sep 1; 99(3):555-66. PMID: 27569549.
        View in: PubMed
      2. Brown BC, Ye CJ, Price AL, Zaitlen N. Transethnic Genetic-Correlation Estimates from Summary Statistics. Am J Hum Genet. 2016 Jul 7; 99(1):76-88. PMID: 27321947.
        View in: PubMed
      3. Uricchio LH, Zaitlen NA, Ye CJ, Witte JS, Hernandez RD. Selection and explosive growth alter genetic architecture and hamper the detection of causal rare variants. Genome Res. 2016 Jul; 26(7):863-73. PMID: 27197206.
        View in: PubMed
      4. Brown BC, Price AL, Patsopoulos NA, Zaitlen N. Local Joint Testing Improves Power and Identifies Hidden Heritability in Association Studies. Genetics. 2016 Jul; 203(3):1105-16. PMID: 27182951.
        View in: PubMed
      5. Rahmani E, Zaitlen N, Baran Y, Eng C, Hu D, Galanter J, Oh S, Burchard EG, Eskin E, Zou J, Halperin E. Sparse PCA corrects for cell type heterogeneity in epigenome-wide association studies. Nat Methods. 2016 May; 13(5):443-5. PMID: 27018579.
        View in: PubMed
      6. Biton A, Torgerson D, Letonqueze O, Zhao W, Zaitlen N, Erle DJ. Massively Parallel Identification of Regulatory Variants in Asthma. Ann Am Thorac Soc. 2016 Mar; 13 Suppl 1:S104. PMID: 27027944.
        View in: PubMed
      7. Balliu B, Zaitlen N. A Novel Test for Detecting SNP-SNP Interactions in Case-Only Trio Studies. Genetics. 2016 Apr; 202(4):1289-97. PMID: 26865367.
        View in: PubMed
      8. Zou JY, Park DS, Burchard EG, Torgerson DG, Pino-Yanes M, Song YS, Sankararaman S, Halperin E, Zaitlen N. Genetic and socioeconomic study of mate choice in Latinos reveals novel assortment patterns. Proc Natl Acad Sci U S A. 2015 Nov 3; 112(44):13621-6. PMID: 26483472; PMCID: PMC4640764 [Available on 05/03/16].
      9. Caswell JL, Camarda R, Zhou AY, Huntsman S, Hu D, Brenner SE, Zaitlen N, Goga A, Ziv E. Multiple breast cancer risk variants are associated with differential transcript isoform expression in tumors. Hum Mol Genet. 2015 Dec 20; 24(25):7421-31. PMID: 26472073; PMCID: PMC4664170.
      10. Vilhjálmsson BJ, Yang J, Finucane HK, Gusev A, Lindström S, Ripke S, Genovese G, Loh PR, Bhatia G, Do R, Hayeck T, Won HH, Kathiresan S, Pato M, Pato C, Tamimi R, Stahl E, Zaitlen N, Pasaniuc B, Belbin G, Kenny EE, Schierup MH, De Jager P, Patsopoulos NA, McCarroll S, Daly M, Purcell S, Chasman D, Neale B, Goddard M, Visscher PM, Kraft P, Patterson N, Price AL. Modeling Linkage Disequilibrium Increases Accuracy of Polygenic Risk Scores. Am J Hum Genet. 2015 Oct 1; 97(4):576-92. PMID: 26430803; PMCID: PMC4596916 [Available on 04/01/16].
      11. Park DS, Brown B, Eng C, Huntsman S, Hu D, Torgerson DG, Burchard EG, Zaitlen N. Adapt-Mix: learning local genetic correlation structure improves summary statistics-based analyses. Bioinformatics. 2015 Jun 15; 31(12):i181-9. PMID: 26072481; PMCID: PMC4553832.
      12. Baran Y, Subramaniam M, Biton A, Tukiainen T, Tsang EK, Rivas MA, Pirinen M, Gutierrez-Arcelus M, Smith KS, Kukurba KR, Zhang R, Eng C, Torgerson DG, Urbanek C, Li JB, Rodriguez-Santana JR, Burchard EG, Seibold MA, MacArthur DG, Montgomery SB, Zaitlen NA, Lappalainen T. The landscape of genomic imprinting across diverse adult human tissues. Genome Res. 2015 Jul; 25(7):927-36. PMID: 25953952; PMCID: PMC4484390.
      13. Watkin LB, Jessen B, Wiszniewski W, Vece TJ, Jan M, Sha Y, Thamsen M, Santos-Cortez RL, Lee K, Gambin T, Forbes LR, Law CS, Stray-Pedersen A, Cheng MH, Mace EM, Anderson MS, Liu D, Tang LF, Nicholas SK, Nahmod K, Makedonas G, Canter DL, Kwok PY, Hicks J, Jones KD, Penney S, Jhangiani SN, Rosenblum MD, Dell SD, Waterfield MR, Papa FR, Muzny DM, Zaitlen N, Leal SM, Gonzaga-Jauregui C, Boerwinkle E, Eissa NT, Gibbs RA, Lupski JR, Orange JS, Shum AK. COPA mutations impair ER-Golgi transport and cause hereditary autoimmune-mediated lung disease and arthritis. Nat Genet. 2015 Jun; 47(6):654-60. PMID: 25894502; PMCID: PMC4513663 [Available on 12/01/15].
      14. Hayeck TJ, Zaitlen NA, Loh PR, Vilhjalmsson B, Pollack S, Gusev A, Yang J, Chen GB, Goddard ME, Visscher PM, Patterson N, Price AL. Mixed model with correction for case-control ascertainment increases association power. Am J Hum Genet. 2015 May 7; 96(5):720-30. PMID: 25892111; PMCID: PMC4570278.
      15. Pirinen M, Lappalainen T, Zaitlen NA, Dermitzakis ET, Donnelly P, McCarthy MI, Rivas MA. Assessing allele-specific expression across multiple tissues from RNA-seq read data. Bioinformatics. 2015 Aug 1; 31(15):2497-504. PMID: 25819081; PMCID: PMC4514921 [Available on 08/01/16].
      16. Park DS, Baran Y, Hormozdiari F, Eng C, Torgerson DG, Burchard EG, Zaitlen N. PIGS: improved estimates of identity-by-descent probabilities by probabilistic IBD graph sampling. BMC Bioinformatics. 2015; 16 Suppl 5:S9. PMID: 25860540; PMCID: PMC4402697.
      17. Aschard H, Zaitlen N, Lindström S, Kraft P. Variation in predictive ability of common genetic variants by established strata: the example of breast cancer and age. Epidemiology. 2015 Jan; 26(1):51-8. PMID: 25380502.
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      18. Cornelis MC, Zaitlen N, Hu FB, Kraft P, Price AL. Genetic and environmental components of family history in type 2 diabetes. Hum Genet. 2015 Feb; 134(2):259-67. PMID: 25543539; PMCID: PMC4293229 [Available on 02/01/16].
      19. Zaitlen N, Pasaniuc B, Sankararaman S, Bhatia G, Zhang J, Gusev A, Young T, Tandon A, Pollack S, Vilhjálmsson BJ, Assimes TL, Berndt SI, Blot WJ, Chanock S, Franceschini N, Goodman PG, He J, Hennis AJ, Hsing A, Ingles SA, Isaacs W, Kittles RA, Klein EA, Lange LA, Nemesure B, Patterson N, Reich D, Rybicki BA, Stanford JL, Stevens VL, Strom SS, Whitsel EA, Witte JS, Xu J, Haiman C, Wilson JG, Kooperberg C, Stram D, Reiner AP, Tang H, Price AL. Leveraging population admixture to characterize the heritability of complex traits. Nat Genet. 2014 Dec; 46(12):1356-62. PMID: 25383972; PMCID: PMC4244251.
      20. Ye CJ, Feng T, Kwon HK, Raj T, Wilson MT, Asinovski N, McCabe C, Lee MH, Frohlich I, Paik HI, Zaitlen N, Hacohen N, Stranger B, De Jager P, Mathis D, Regev A, Benoist C. Intersection of population variation and autoimmunity genetics in human T cell activation. Science. 2014 Sep 12; 345(6202):1254665. PMID: 25214635.
        View in: PubMed
      21. Pasaniuc B, Zaitlen N, Shi H, Bhatia G, Gusev A, Pickrell J, Hirschhorn J, Strachan DP, Patterson N, Price AL. Fast and accurate imputation of summary statistics enhances evidence of functional enrichment. Bioinformatics. 2014 Oct 15; 30(20):2906-14. PMID: 24990607; PMCID: PMC4184260.
      22. Zhao W, Pollack JL, Blagev DP, Zaitlen N, McManus MT, Erle DJ. Massively parallel functional annotation of 3' untranslated regions. Nat Biotechnol. 2014 Apr; 32(4):387-91. PMID: 24633241; PMCID: PMC3981918.
      23. Yang J, Zaitlen NA, Goddard ME, Visscher PM, Price AL. Advantages and pitfalls in the application of mixed-model association methods. Nat Genet. 2014 Feb; 46(2):100-6. PMID: 24473328; PMCID: PMC3989144.
      24. Gusev A, Bhatia G, Zaitlen N, Vilhjalmsson BJ, Diogo D, Stahl EA, Gregersen PK, Worthington J, Klareskog L, Raychaudhuri S, Plenge RM, Pasaniuc B, Price AL. Quantifying missing heritability at known GWAS loci. PLoS Genet. 2013; 9(12):e1003993. PMID: 24385918; PMCID: PMC3873246.
      25. Chimusa ER, Zaitlen N, Daya M, Möller M, van Helden PD, Mulder NJ, Price AL, Hoal EG. Genome-wide association study of ancestry-specific TB risk in the South African Coloured population. Hum Mol Genet. 2014 Feb 1; 23(3):796-809. PMID: 24057671; PMCID: PMC3888262.
      26. Zaitlen N, Kraft P, Patterson N, Pasaniuc B, Bhatia G, Pollack S, Price AL. Using extended genealogy to estimate components of heritability for 23 quantitative and dichotomous traits. PLoS Genet. 2013 May; 9(5):e1003520. PMID: 23737753; PMCID: PMC3667752.
      27. Pasaniuc B, Sankararaman S, Torgerson DG, Gignoux C, Zaitlen N, Eng C, Rodriguez-Cintron W, Chapela R, Ford JG, Avila PC, Rodriguez-Santana J, Chen GK, Le Marchand L, Henderson B, Reich D, Haiman CA, Gonzàlez Burchard E, Halperin E. Analysis of Latino populations from GALA and MEC studies reveals genomic loci with biased local ancestry estimation. Bioinformatics. 2013 Jun 1; 29(11):1407-15. PMID: 23572411; PMCID: PMC3661056.
      28. Aschard H, Zaitlen N, Tamimi RM, Lindström S, Kraft P. A nonparametric test to detect quantitative trait loci where the phenotypic distribution differs by genotypes. Genet Epidemiol. 2013 May; 37(4):323-33. PMID: 23512279; PMCID: PMC4088942.
      29. Price AL, Zaitlen NA, Reich D, Patterson N. Response to Sul and Eskin. Nat Rev Genet. 2013 Apr; 14(4):300. PMID: 23438870.
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      30. Zaitlen N, Lindström S, Pasaniuc B, Cornelis M, Genovese G, Pollack S, Barton A, Bickeböller H, Bowden DW, Eyre S, Freedman BI, Friedman DJ, Field JK, Groop L, Haugen A, Heinrich J, Henderson BE, Hicks PJ, Hocking LJ, Kolonel LN, Landi MT, Langefeld CD, Le Marchand L, Meister M, Morgan AW, Raji OY, Risch A, Rosenberger A, Scherf D, Steer S, Walshaw M, Waters KM, Wilson AG, Wordsworth P, Zienolddiny S, Tchetgen ET, Haiman C, Hunter DJ, Plenge RM, Worthington J, Christiani DC, Schaumberg DA, Chasman DI, Altshuler D, Voight B, Kraft P, Patterson N, Price AL. Informed conditioning on clinical covariates increases power in case-control association studies. PLoS Genet. 2012; 8(11):e1003032. PMID: 23144628; PMCID: PMC3493452.
      31. Zaitlen N, Kraft P. Heritability in the genome-wide association era. Hum Genet. 2012 Oct; 131(10):1655-64. PMID: 22821350; PMCID: PMC3432754.
      32. Pasaniuc B, Rohland N, McLaren PJ, Garimella K, Zaitlen N, Li H, Gupta N, Neale BM, Daly MJ, Sklar P, Sullivan PF, Bergen S, Moran JL, Hultman CM, Lichtenstein P, Magnusson P, Purcell SM, Haas DW, Liang L, Sunyaev S, Patterson N, de Bakker PI, Reich D, Price AL. Extremely low-coverage sequencing and imputation increases power for genome-wide association studies. Nat Genet. 2012 Jun; 44(6):631-5. PMID: 22610117; PMCID: PMC3400344.
      33. Zaitlen N, Pasaniuc B, Patterson N, Pollack S, Voight B, Groop L, Altshuler D, Henderson BE, Kolonel LN, Le Marchand L, Waters K, Haiman CA, Stranger BE, Dermitzakis ET, Kraft P, Price AL. Analysis of case-control association studies with known risk variants. Bioinformatics. 2012 Jul 1; 28(13):1729-37. PMID: 22556366; PMCID: PMC3381970.
      34. Aschard H, Qiu W, Pasaniuc B, Zaitlen N, Cho MH, Carey V. Combining effects from rare and common genetic variants in an exome-wide association study of sequence data. BMC Proc. 2011; 5 Suppl 9:S44. PMID: 22373328.
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      35. Bhatia G, Patterson N, Pasaniuc B, Zaitlen N, Genovese G, Pollack S, Mallick S, Myers S, Tandon A, Spencer C, Palmer CD, Adeyemo AA, Akylbekova EL, Cupples LA, Divers J, Fornage M, Kao WH, Lange L, Li M, Musani S, Mychaleckyj JC, Ogunniyi A, Papanicolaou G, Rotimi CN, Rotter JI, Ruczinski I, Salako B, Siscovick DS, Tayo BO, Yang Q, McCarroll S, Sabeti P, Lettre G, De Jager P, Hirschhorn J, Zhu X, Cooper R, Reich D, Wilson JG, Price AL. Genome-wide comparison of African-ancestry populations from CARe and other cohorts reveals signals of natural selection. Am J Hum Genet. 2011 Sep 9; 89(3):368-81. PMID: 21907010; PMCID: PMC3169818.
      36. He D, Zaitlen N, Pasaniuc B, Eskin E, Halperin E. Genotyping common and rare variation using overlapping pool sequencing. BMC Bioinformatics. 2011; 12 Suppl 6:S2. PMID: 21989232; PMCID: PMC3194190.
      37. Pasaniuc B, Zaitlen N, Lettre G, Chen GK, Tandon A, Kao WH, Ruczinski I, Fornage M, Siscovick DS, Zhu X, Larkin E, Lange LA, Cupples LA, Yang Q, Akylbekova EL, Musani SK, Divers J, Mychaleckyj J, Li M, Papanicolaou GJ, Millikan RC, Ambrosone CB, John EM, Bernstein L, Zheng W, Hu JJ, Ziegler RG, Nyante SJ, Bandera EV, Ingles SA, Press MF, Chanock SJ, Deming SL, Rodriguez-Gil JL, Palmer CD, Buxbaum S, Ekunwe L, Hirschhorn JN, Henderson BE, Myers S, Haiman CA, Reich D, Patterson N, Wilson JG, Price AL. Enhanced statistical tests for GWAS in admixed populations: assessment using African Americans from CARe and a Breast Cancer Consortium. PLoS Genet. 2011 Apr; 7(4):e1001371. PMID: 21541012; PMCID: PMC3080860.
      38. Pasaniuc B, Zaitlen N, Halperin E. Accurate estimation of expression levels of homologous genes in RNA-seq experiments. J Comput Biol. 2011 Mar; 18(3):459-68. PMID: 21385047.
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      39. Zaitlen N, Eskin E. Imputation aware meta-analysis of genome-wide association studies. Genet Epidemiol. 2010 Sep; 34(6):537-42. PMID: 20717975; PMCID: PMC3102182.
      40. Santana R, Mendiburu A, Zaitlen N, Eskin E, Lozano JA. Multi-marker tagging single nucleotide polymorphism selection using estimation of distribution algorithms. Artif Intell Med. 2010 Nov; 50(3):193-201. PMID: 20650616.
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      41. Price AL, Zaitlen NA, Reich D, Patterson N. New approaches to population stratification in genome-wide association studies. Nat Rev Genet. 2010 Jul; 11(7):459-63. PMID: 20548291; PMCID: PMC2975875.
      42. Kang HM, Sul JH, Service SK, Zaitlen NA, Kong SY, Freimer NB, Sabatti C, Eskin E. Variance component model to account for sample structure in genome-wide association studies. Nat Genet. 2010 Apr; 42(4):348-54. PMID: 20208533; PMCID: PMC3092069.
      43. Kang HM, Zaitlen NA, Eskin E. EMINIM: an adaptive and memory-efficient algorithm for genotype imputation. J Comput Biol. 2010 Mar; 17(3):547-60. PMID: 20377463; PMCID: PMC3198882.
      44. Zaitlen N, Pasaniuc B, Gur T, Ziv E, Halperin E. Leveraging genetic variability across populations for the identification of causal variants. Am J Hum Genet. 2010 Jan; 86(1):23-33. PMID: 20085711; PMCID: PMC2801753.
      45. Smith EN, Bloss CS, Badner JA, Barrett T, Belmonte PL, Berrettini W, Byerley W, Coryell W, Craig D, Edenberg HJ, Eskin E, Foroud T, Gershon E, Greenwood TA, Hipolito M, Koller DL, Lawson WB, Liu C, Lohoff F, McInnis MG, McMahon FJ, Mirel DB, Murray SS, Nievergelt C, Nurnberger J, Nwulia EA, Paschall J, Potash JB, Rice J, Schulze TG, Scheftner W, Panganiban C, Zaitlen N, Zandi PP, Zöllner S, Schork NJ, Kelsoe JR. Genome-wide association study of bipolar disorder in European American and African American individuals. Mol Psychiatry. 2009 Aug; 14(8):755-63. PMID: 19488044; PMCID: PMC3035981.
      46. Zaitlen N, Kang HM, Eskin E. Linkage effects and analysis of finite sample errors in the HapMap. Hum Hered. 2009; 68(2):73-86. PMID: 19365134; PMCID: PMC2874737.
      47. Sabatti C, Service SK, Hartikainen AL, Pouta A, Ripatti S, Brodsky J, Jones CG, Zaitlen NA, Varilo T, Kaakinen M, Sovio U, Ruokonen A, Laitinen J, Jakkula E, Coin L, Hoggart C, Collins A, Turunen H, Gabriel S, Elliot P, McCarthy MI, Daly MJ, Järvelin MR, Freimer NB, Peltonen L. Genome-wide association analysis of metabolic traits in a birth cohort from a founder population. Nat Genet. 2009 Jan; 41(1):35-46. PMID: 19060910; PMCID: PMC2687077.
      48. Zaitlen N, Reyes-Gomez M, Heckerman D, Jojic N. Shift-invariant adaptive double threading: learning MHC II-peptide binding. J Comput Biol. 2008 Sep; 15(7):927-42. PMID: 18771399.
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      49. Han B, Kang HM, Seo MS, Zaitlen N, Eskin E. Efficient association study design via power-optimized tag SNP selection. Ann Hum Genet. 2008 Nov; 72(Pt 6):834-47. PMID: 18702637; PMCID: PMC2574965.
      50. Kang HM, Zaitlen NA, Wade CM, Kirby A, Heckerman D, Daly MJ, Eskin E. Efficient control of population structure in model organism association mapping. Genetics. 2008 Mar; 178(3):1709-23. PMID: 18385116; PMCID: PMC2278096.
      51. Zaitlen N, Kang HM, Eskin E, Halperin E. Leveraging the HapMap correlation structure in association studies. Am J Hum Genet. 2007 Apr; 80(4):683-91. PMID: 17357074; PMCID: PMC1852710.
      52. Zaitlen NA, Kang HM, Feolo ML, Sherry ST, Halperin E, Eskin E. Inference and analysis of haplotypes from combined genotyping studies deposited in dbSNP. Genome Res. 2005 Nov; 15(11):1594-600. PMID: 16251470; PMCID: PMC1310648.
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