Publications

2014

  • Yang J, Zaitlen NA, Goddard ME, Visscher PM, Price AL.  Advantages and pitfalls in the application of mixed-model association methods.  Nat Genet.  2014 Jan 29 [Epub ahead of print]

2013

  • 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.
  • Chen CY, Pollack S, Hunter DJ, Hirschhorn JN, Kraft P, Price AL.  Improved ancestry inference using weights from external reference panels.  Bioinformatics.  2013 Mar 28;29(11):1399-1406.  PMCID: PMC3661048.
  • Bhatia G*, Patterson N*, Sankararaman S, Price AL.  Estimating and interpreting Fst: the impact of rare variants. Genome Res. 2013 Sept;23(9):1514-21.  PMCID: PMC3759727.
  • Price AL, Zaitlen NA, Reich D, Patterson N.  Response to Sul and Eskin.  Nat Rev Genet.  2013 Apr14;(4):300. doi: 10.1038/nrg2813-c2. Epub 2013 Feb 26.
  • Gokcumen O, Zhu Q, Mulder L, Iskow RC, Austermann C, Scharer CD, Raj T, Boss JM, Sunyaev S, Price AL, Stranger B, Simon V, Lee C.  Balancing selection on a regulatory region exhibiting ancient variation that predates Human-Neandertal divergence.  PLoS Genet.  2013 Apr;9(4):e1003404.  PMCID: PMC3623772.
  • Genovese G, Handsaker RE, Li H, Altemose N, Lindgren AM, Chambert K, Pasaniuc B, Price AL, Reich D, Morton CC, Pollak MR, Wilson JG, McCarroll SA.  Using population admixture to help complete maps of the human genome.  Nat Genet.  2013 Apr;45(4):406-14. doi: 10.1038/ng.2565. Epub 2013 Feb 24.
  • Kantor DB, Palmer CD, Young TR, Meng Y, Gajdos ZK, Lyon H, Price AL, Pollack S, London SJ, Loehr LR, Smith LJ, Kumar R, Jacobs Jr DR, Petrini MF, O’Connor GT, White WB, Papanicolaou G, Burkart KM, Heckbert SR, Barr RG, Hirschhorn JN.  Replication and fine mapping of asthma-associated loci in individuals of African ancestry.  Hum Genet. 2013 Sept;132(9):1039-47.
  • Wray NR, Yang J, Hayes BJ, Price AL, Goddard ME, Visscher PM.  Pitfalls of predicting complex traits from SNPs.  Nat Rev Genet. 2013 Jul;14(7):507-15.
  • Chimusa ER*, Zaitlen N*, Daya M, Moeller M, Mulder NJ, Price AL*, Hoal E*.  Genome-wide association study of ancestry-specific TB risk in the South African Coloured population.  Hum Mol Genet. 2014 Feb;23(3):796-809.
  • 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 Genetics. 2013 Dec;9(12):e1003993.  PMCID: PMC3873246.

2012

  • Pasaniuc B, Rohland N, McLaren PJ, Garimella K, Zaitlen N, other authors, Sunyaev S, Patterson N, de Bakker PIW, Reich D*, Price AL*.  Extremely low-coverage sequencing and imputation increases power for genome-wide association studies. Nat Genet. 2012 May 20;44(6): 631-635.  PMID: 22610117.  PMCID:PMC3400344.
  • Kiezun A*, Garimella K*, Do R*, Stitziel NO*, Neale BM, other authors, Shugart YY, Price AL*, de Bakker PI*, Purcell SM*, Sunyaev SR*.  Exome sequencing and the genetic basis of complex traits. Nat Genet. 2012 May 29;44(6):623-630. PMID: 22641211.
  • Zaitlen N, Pasaniuc B, Patterson N, Pollack S, Voight B, other authors, 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):1729-1737. Epub 2012 May 3.  PMCID: PMC3381970.
  • Campbell DD, Parra MV, Duque C, Gallego N, Franco L, Tandon A, Hunemeier T, Bortolini C, Villegas A, Bedoya G, McCarthy MI, Price AL, Reich D, Ruiz-Linares A.  Amerind Ancestry, Socioeconomic Status and the Genetics of Type 2 Diabetes in a Colombian Population.  PLoS One. 2012; 7(4): e33570.  Epub 2012 Apr 17.  PMCID: PMC3328483.
  • Stranger BE, Montgomery SB, Dimas AS, Parts L, Stegle O, Ingle CE, Sekowska M, Smith GD, Evans D, Gutierrez-Arcelus M, Price A, Raj T, Nisbett J, Nica AC, Beazley C, Durbin R, Deloukas P, Dermitzakis ET.  Patterns of cis regulatory variation in diverse human populations.  PLoS Genet. 2012 Apr;8(4):e1002639.  Epub 2012 Apr 19.  PMID: 22532805.  PMCID:PMC3330104.
  • Epstein MM, Kasperzyk JL, Mucci LA, Giovannucci E, Price A, Wolk A, Hakansson N, Fall K, Andersson SO, Andren O.  Dietary Fatty Acid Intake and Prostate Cancer Survival in Orebro County, Sweden.  Am J Epidemiol.  2012 Aug 1;176(3):240-252.  PMCID:PMC3491963.
  • Reich D, Patterson N, Campbell D, Tandon A, Mazieres S, other authors, Kidd K, Di Rienzo A, Freimer NB, Price AL, Ruiz-Linares A.  Reconstructing Native American population history.  Nature. 2012 Aug 16;488(7411):370-374. PMID:22801491. [PubMed- in process]
  • Zaitlen N, Lindstrom S, Pasaniuc B, Cornelis M, Genovese G, other authors, 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 Nov;8(11):e1003032.  Epub 2012 Nov 8. PMCID: PMC3493452.

2011

  • Price AL, Helgason A, Thorleifsson G, McCarroll SA, Kong A, Stefansson K.  Single-tissue and cross-tissue heritability of gene expression via identity-by-descent in related or unrelated individuals.  PLoS Genet.  2011 Feb; 7(2): e1001317.  Epub 2011 Feb 24.  PMID: 21383966.  PMCID: PMC3044684.
  • Pasaniuc B, Zaitlen N, Lettre G, Chen GK, Tandon A, other authors, 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 April; 7(4): e1001371.  Epub 2011 April 21.  PMCID: PMC3080860.
  • Moorjani P, Patterson N, Hirschhorn JN, Keinan A, Hao L, Atzmon G, Burns E, Ostrer H, Price AL, Reich D. The History of African Gene Flow into Southern Europeans, Levantines and Jews. PLoS Genet.  2011 April; 7(4): e1001373.  Epub 2011 April 21.  PMCID: PMC3080861.
  • Seldin MF, Pasaniuc B, Price AL.  New approaches to disease mapping in admixed populations.  Nat Rev Genet.  2011 June 28.  doi: 10.1038/nrg3002.  Epub ahead of print.  PMCID: PMC3142784.
  • Hinch AG, Tandon A, Patterson N, Song Y, Rohland N, other authors, Price AL, Hakonarson H, Chanock SJ, Haiman CA, Wilson JG, Reich D, Myers S.  The landscape of recombination in African-Americans.  Nature.  2011 July 20. doi: 10.1038/nature10336.  Epub ahead of print.  PMCID: PMC3154982.
  • Bhatia G, Patterson N, Pasaniuc B, Zaitlen N, Genovese G, other authors, 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.  AJHG.  2011 Sept 9; 89 (3): 368-381.  PMCID: PMC3169818.

2010

  • Price AL, Zaitlen NA, Reich D, Patterson N.  New approaches to population stratification in genome-wide association studies.  Nat Rev Genet. 2010 Jun 15;11(7):459-463. PMCID: PMC2975875
  • Price AL*, Kryukov GV*, de Bakker PI, Purcell SM, Staples J, Wei LJ, Sunyaev SR. Pooled Association Tests for Rare Variants in Exon-Resequencing Studies. Am J Hum Genet. 2010 Jun 11;86(6):832-8. Epub 2010 May 13.  PMCID: PMC3032073.
  • International HapMap 3 Consortium. Integrating common and rare genetic variation in diverse human populations. Nature. 2010 Sep  2;467(7311):52-8.  PMCID: PMC3173859.
  • Meyer MS, Penney KL, Stark JR, Schumacher FR, Sesso HD, Loda M, Fiorentino M, Finn S, Flavin RJ, Kurth T, Price AL, Giovannucci EL, Fall K, Stampfer MJ, Ma J, Mucci LA. Genetic variation in RNASEL associated with prostate cancer risk and progression. Carcinogenesis. 2010 Sep;31(9):1597-603. Epub 2010 Jun 24. PMCID: PMC2930803

2009

  • Reich D*, Thangaraj K*, Patterson N*, Price AL*, Singh L. Reconstructing Indian population history. Nature. 2009 Sep 24;461(7263):489-94.  PMCID: PMC2842210.
  • Florez JC*, Price AL*, Campbell D, Riba L, Parra MV, Yu F, Duque C, Saxena R, Gallego N, Tello-Ruiz M, Franco L, Rodríguez-Torres M, Villegas A, Bedoya G, Aguilar-Salinas CA, Tusié-Luna MT, Ruiz-Linares A, Reich D. Strong association of socioeconomic status with genetic ancestry in Latinos: implications for admixture studies of type 2 diabetes. Diabetologia. 2009 Aug;52(8):1528-36. Epub 2009 Jun 13.  PMCID: PMC3113605.
  • Price AL, Tandon A, Patterson N, Barnes KC, Rafaels N, Ruczinski I, Beaty TH, Mathias R, Reich D, Myers S. Sensitive detection of chromosomal segments of distinct ancestry in admixed populations. PLoS Genet. 2009 Jun;5(6):e1000519. Epub 2009 Jun 19. PMCID: PMC2689842
  • Price AL, Helgason A, Palsson S, Stefansson H, St Clair D, Andreassen OA, Reich D, Kong A, Stefansson K. The impact of divergence time on the nature of population structure: an example from Iceland. PLoS Genet. 2009 Jun;5(6):e1000505. Epub 2009 Jun 5. PMCID: PMC2684636
  • De Jager PL, Baecher-Allan C, Maier LM, Arthur AT, Ottoboni L, Barcellos L, McCauley JL, Sawcer S, Goris A, Saarela J, Yelensky R, Price AL, Leppa V, Patterson N, de Bakker PI, Tran D, Aubin C, Pobywajlo S, Rossin E, Hu X, Ashley CW, Choy E, Rioux JD, Pericak-Vance MA, Ivinson A, Booth DR, Stewart GJ, Palotie A, Peltonen L, Dubois B, Haines JL, Weiner HL, Compston A, Hauser SL, Daly MJ, Reich D, Oksenberg JR, Hafler DA. The role of the CD58 locus in multiple sclerosis. Proc Natl Acad Sci U S A. 2009 Mar 31;106(13):5264-9. Epub 2009 Feb 23. PMCID: PMC2664005
  • Dhandapany PS, Sadayappan S, Xue Y, Powell GT, Rani DS, Nallari P, Rai TS, Khullar M, Soares P, Bahl A, Tharkan JM, Vaideeswar P, Rathinavel A, Narasimhan C, Ayapati DR, Ayub Q, Mehdi SQ, Oppenheimer S, Richards MB, Price AL, Patterson N, Reich D, Singh L, Tyler-Smith C, Thangaraj K. A common MYBPC3 (cardiac myosin binding protein C) variant associated with cardiomyopathies in South Asia. Nat Genet. 2009 Feb;41(2):187-91. Epub 2009 Jan 18.. PMCID: PMC2697598

2008

  • Price AL, Patterson N, Hancks DC, Myers S, Reich D, Cheung VG, Spielman RS. Effects of cis and trans genetic ancestry on gene expression in African Americans. PLoS Genet. 2008 Dec;4(12):e1000294. Epub 2008 Dec 5. PMCID: PMC2586034
  • Keating BJ, Tischfield S, Murray SS, Bhangale T, Price TS, Glessner JT, Galver L, Barrett JC, Grant SF, Farlow DN, Chandrupatla HR, Hansen M, Ajmal S, Papanicolaou GJ, Guo Y, Li M, Derohannessian S, de Bakker PI, Bailey SD, Montpetit A, Edmondson AC, Taylor K, Gai X, Wang SS, Fornage M, Shaikh T, Groop L, Boehnke M, Hall AS, Hattersley AT, Frackelton E, Patterson N, Chiang CW, Kim CE, Fabsitz RR, Ouwehand W, Price AL, Munroe P, Caulfield M, Drake T, Boerwinkle E, Reich D, Whitehead AS, Cappola TP, Samani NJ, Lusis AJ, Schadt E, Wilson JG, Koenig W, McCarthy MI, Kathiresan S, Gabriel SB, Hakonarson H, Anand SS, Reilly M, Engert JC, Nickerson DA, Rader DJ, Hirschhorn JN, Fitzgerald GA. Concept, design and implementation of a cardiovascular gene-centric 50 k SNP array for large-scale genomic association studies. PLoS One. 2008;3(10):e3583. Epub 2008 Oct 31.. PMCID: PMC2571995
  • Gajdos ZK, Butler JL, Henderson KD, He C, Supelak PJ, Egyud M, Price AL, Reich D, Clayton PE, Le Marchand L, Hunter DJ, Henderson BE, Palmert MR, Hirschhorn JN. ssociation studies of common variants in 10 hypogonadotropic hypogonadism genes with age at menarche. J Clin Endocrinol Metab. 2008 Nov;93(11):4290-8. Epub 2008 Aug 26. PMCID: PMC2582573
  • Price AL, Weale ME, Patterson N, Myers SR, Need AC, Shianna KV, Ge D, Rotter JI, Torres E, Taylor KD, Goldstein DB, Reich D. Long-range LD can confound genome scans in admixed populations. Am J Hum Genet. 2008 Jul;83(1):132-5; author reply 135-9. PMCID: PMC2443852
  • Reich D, Price AL, Patterson N. Principal component analysis of genetic data. Nat Genet. 2008 May;40(5):491-2.
  • Seldin MF, Price AL. Application of ancestry informative markers to association studies in European Americans. PLoS Genet. 2008 Jan;4(1):e5. PMCID: PMC2211545
  • Price AL, Butler J, Patterson N, Capelli C, Pascali VL, Scarnicci F, Ruiz-Linares A, Groop L, Saetta AA, Korkolopoulou P, Seligsohn U, Waliszewska A, Schirmer C, Ardlie K, Ramos A, Nemesh J, Arbeitman L, Goldstein DB, Reich D, Hirschhorn JN. Discerning the ancestry of European Americans in genetic association studies. PLoS Genet. 2008 Jan;4(1):e236. Epub 2007 Nov 19. PMCID: PMC2211542

2007

  • Plenge RM, Cotsapas C, Davies L, Price AL, de Bakker PI, Maller J, Pe’er I, Burtt NP, Blumenstiel B, DeFelice M, Parkin M, Barry R, Winslow W, Healy C, Graham RR, Neale BM, Izmailova E, Roubenoff R, Parker AN, Glass R, Karlson EW, Maher N, Hafler DA, Lee DM, Seldin MF, Remmers EF, Lee AT, Padyukov L, Alfredsson L, Coblyn J, Weinblatt ME, Gabriel SB, Purcell S, Klareskog L, Gregersen PK, Shadick NA, Daly MJ, Altshuler D. Two independent alleles at 6q23 associated with risk of rheumatoid arthritis. Nat Genet. 2007 Dec;39(12):1477-82. Epub 2007 Nov 4. PMCID: PMC2652744
  • Sabeti PC, Varilly P, Fry B, Lohmueller J, Hostetter E, Cotsapas C, Xie X, Byrne EH, McCarroll SA, Gaudet R, Schaffner SF, Lander ES; International HapMap Consortium. Genome-wide detection and characterization of positive selection in human populations. Nature. 2007 Oct 18;449(7164):913-8. PMCID: PMC2687721
  • International HapMap Consortium. A second generation human haplotype map of over 3.1 million SNPs. Nature. 2007 Oct 18;449(7164):851-61. PMCID: PMC2689609
  • Ayodo G, Price AL, Keinan A, Ajwang A, Otieno MF, Orago AS, Patterson N, Reich D. Combining proof of natural selection with association analysis increases power to detect malaria-resistance variants. Am J Hum Genet. 2007 Aug;81(2):234-42. Epub 2007 Jun 15.. PMCID: PMC1950820
  • Price AL, Patterson N, Yu F, Cox DR, Waliszewska A, McDonald GJ, Tandon A, Schirmer C, Neubauer J, Bedoya G, Duque C, Villegas A, Bortolini MC, Salzano FM, Gallo C, Mazzotti G, Tello-Ruiz M, Riba L, Aguilar-Salinas CA, Canizales-Quinteros S, Menjivar M, Klitz W, Henderson B, Haiman CA, Winkler C, Tusie-Luna T, Ruiz-Linares A, Reich D. A genomewide admixture map for Latino populations. Am J Hum Genet. 2007 Jun;80(6):1024-36. Epub 2007 Apr 13. PMCID: PMC1867092

2006

  • Patterson N, Price AL, Reich D. Population structure and eigenanalysis. PLoS Genet. 2006 Dec;2(12):e190.. PMCID: PMC1713260
  • Price AL, Patterson NJ, Plenge RM, Weinblatt ME, Shadick NA, Reich D. Principal components analysis corrects for stratification in genome-wide association studies. Nat Genet. 2006 Aug;38(8):904-9. Epub 2006 Jul 23.
  • Zhi D, Raphael BJ, Price AL, Tang H, Pevzner PA.. Identifying repeat domains in large genomes. Genome Biol. 2006;7(1):R7. Epub 2006 Jan 31. PMCID: PMC1431705

2003-2005

  • Bashir A, Ye C, Price AL, Bafna V. Orthologous repeats and mammalian phylogenetic inference. Genome Res. 2005 Jul;15(7):998-1006. PMCID: PMC1172044
  • Price AL, Jones NC, Pevzner PA. De novo identification of repeat families in large genomes. Bioinformatics. 2005 Jun;21 Suppl 1:i351-8. Proceedings of the 13th Annual International Conference on Intelligent Systems for Molecular Biology (ISMB-05). Detroit, Michigan.
  • Price AL, Eskin E, Pevzner PA. Whole-genome analysis of Alu repeat elements reveals complex evolutionary history. Genome Res. 2004 Nov;14(11):2245-52. PMCID: PMC525682
  • Price AL, Ramabhadran S, Pevzner PA. Finding subtle motifs by branching from sample strings. Bioinformatics. 2003 Oct;19 Suppl 2:ii149-55.