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Growth factor gene IGF1 is associated with bill size in the black-bellied seedcracker Pyrenestes ostrinus.

vonHoldt BM, Kartzinel RY, Huber CD, Le Underwood V, Zhen Y, Ruegg K, Lohmueller KE, Smith TB.

Nat Commun. 2018 Nov 19;9(1):4855. doi: 10.1038/s41467-018-07374-9.


Purging of Strongly Deleterious Mutations Explains Long-Term Persistence and Absence of Inbreeding Depression in Island Foxes.

Robinson JA, Brown C, Kim BY, Lohmueller KE, Wayne RK.

Curr Biol. 2018 Nov 5;28(21):3487-3494.e4. doi: 10.1016/j.cub.2018.08.066. Epub 2018 Oct 25.


Understanding the Hidden Complexity of Latin American Population Isolates.

Mooney JA, Huber CD, Service S, Sul JH, Marsden CD, Zhang Z, Sabatti C, Ruiz-Linares A, Bedoya G; Costa Rica/Colombia Consortium for Genetic Investigation of Bipolar Endophenotypes, Freimer N, Lohmueller KE.

Am J Hum Genet. 2018 Nov 1;103(5):707-726. doi: 10.1016/j.ajhg.2018.09.013. Epub 2018 Oct 25.


Deleterious variation shapes the genomic landscape of introgression.

Kim BY, Huber CD, Lohmueller KE.

PLoS Genet. 2018 Oct 22;14(10):e1007741. doi: 10.1371/journal.pgen.1007741. eCollection 2018 Oct.


RADseq data reveal ancient, but not pervasive, introgression between Californian tree and scrub oak species (Quercus sect. Quercus: Fagaceae).

Kim BY, Wei X, Fitz-Gibbon S, Lohmueller KE, Ortego J, Gugger PF, Sork VL.

Mol Ecol. 2018 Nov;27(22):4556-4571. doi: 10.1111/mec.14869. Epub 2018 Oct 12.


Genomic history of the Sardinian population.

Chiang CWK, Marcus JH, Sidore C, Biddanda A, Al-Asadi H, Zoledziewska M, Pitzalis M, Busonero F, Maschio A, Pistis G, Steri M, Angius A, Lohmueller KE, Abecasis GR, Schlessinger D, Cucca F, Novembre J.

Nat Genet. 2018 Oct;50(10):1426-1434. doi: 10.1038/s41588-018-0215-8. Epub 2018 Sep 17.


Gene expression drives the evolution of dominance.

Huber CD, Durvasula A, Hancock AM, Lohmueller KE.

Nat Commun. 2018 Jul 16;9(1):2750. doi: 10.1038/s41467-018-05281-7.


Natural Selection and Origin of a Melanistic Allele in North American Gray Wolves.

Schweizer RM, Durvasula A, Smith J, Vohr SH, Stahler DR, Galaverni M, Thalmann O, Smith DW, Randi E, Ostrander EA, Green RE, Lohmueller KE, Novembre J, Wayne RK.

Mol Biol Evol. 2018 May 1;35(5):1190-1209. doi: 10.1093/molbev/msy031.


Comparison of Single Genome and Allele Frequency Data Reveals Discordant Demographic Histories.

Beichman AC, Phung TN, Lohmueller KE.

G3 (Bethesda). 2017 Nov 6;7(11):3605-3620. doi: 10.1534/g3.117.300259.


Genomic divergence across ecological gradients in the Central African rainforest songbird (Andropadus virens).

Zhen Y, Harrigan RJ, Ruegg KC, Anderson EC, Ng TC, Lao S, Lohmueller KE, Smith TB.

Mol Ecol. 2017 Oct;26(19):4966-4977. doi: 10.1111/mec.14270. Epub 2017 Aug 21.


Determining the factors driving selective effects of new nonsynonymous mutations.

Huber CD, Kim BY, Marsden CD, Lohmueller KE.

Proc Natl Acad Sci U S A. 2017 Apr 25;114(17):4465-4470. doi: 10.1073/pnas.1619508114. Epub 2017 Apr 11.


Inference of the Distribution of Selection Coefficients for New Nonsynonymous Mutations Using Large Samples.

Kim BY, Huber CD, Lohmueller KE.

Genetics. 2017 May;206(1):345-361. doi: 10.1534/genetics.116.197145. Epub 2017 Mar 1.


The Effect of an Extreme and Prolonged Population Bottleneck on Patterns of Deleterious Variation: Insights from the Greenlandic Inuit.

Pedersen CT, Lohmueller KE, Grarup N, Bjerregaard P, Hansen T, Siegismund HR, Moltke I, Albrechtsen A.

Genetics. 2017 Feb;205(2):787-801. doi: 10.1534/genetics.116.193821. Epub 2016 Nov 30.


Determining the Effect of Natural Selection on Linked Neutral Divergence across Species.

Phung TN, Huber CD, Lohmueller KE.

PLoS Genet. 2016 Aug 10;12(8):e1006199. doi: 10.1371/journal.pgen.1006199. eCollection 2016 Aug.


PReFerSim: fast simulation of demography and selection under the Poisson Random Field model.

Ortega-Del Vecchyo D, Marsden CD, Lohmueller KE.

Bioinformatics. 2016 Nov 15;32(22):3516-3518. Epub 2016 Jul 19.


Genomic Flatlining in the Endangered Island Fox.

Robinson JA, Ortega-Del Vecchyo D, Fan Z, Kim BY, vonHoldt BM, Marsden CD, Lohmueller KE, Wayne RK.

Curr Biol. 2016 May 9;26(9):1183-9. doi: 10.1016/j.cub.2016.02.062. Epub 2016 Apr 21.


Validation of probabilistic genotyping software for use in forensic DNA casework: Definitions and illustrations.

Haned H, Gill P, Lohmueller K, Inman K, Rudin N.

Sci Justice. 2016 Mar;56(2):104-8. doi: 10.1016/j.scijus.2015.11.007. Epub 2015 Dec 29.


An assessment of the information content of likelihood ratios derived from complex mixtures.

Marsden CD, Rudin N, Inman K, Lohmueller KE.

Forensic Sci Int Genet. 2016 May;22:64-72. doi: 10.1016/j.fsigen.2016.01.008. Epub 2016 Jan 19.


Bottlenecks and selective sweeps during domestication have increased deleterious genetic variation in dogs.

Marsden CD, Ortega-Del Vecchyo D, O'Brien DP, Taylor JF, Ramirez O, Vilà C, Marques-Bonet T, Schnabel RD, Wayne RK, Lohmueller KE.

Proc Natl Acad Sci U S A. 2016 Jan 5;113(1):152-7. doi: 10.1073/pnas.1512501113. Epub 2015 Dec 22.


Lab Retriever: a software tool for calculating likelihood ratios incorporating a probability of drop-out for forensic DNA profiles.

Inman K, Rudin N, Cheng K, Robinson C, Kirschner A, Inman-Semerau L, Lohmueller KE.

BMC Bioinformatics. 2015 Sep 18;16:298. doi: 10.1186/s12859-015-0740-8.


Height-reducing variants and selection for short stature in Sardinia.

Zoledziewska M, Sidore C, Chiang CWK, Sanna S, Mulas A, Steri M, Busonero F, Marcus JH, Marongiu M, Maschio A, Ortega Del Vecchyo D, Floris M, Meloni A, Delitala A, Concas MP, Murgia F, Biino G, Vaccargiu S, Nagaraja R, Lohmueller KE; UK10K consortium, Timpson NJ, Soranzo N, Tachmazidou I, Dedoussis G, Zeggini E; Understanding Society Scientific Group, Uzzau S, Jones C, Lyons R, Angius A, Abecasis GR, Novembre J, Schlessinger D, Cucca F.

Nat Genet. 2015 Nov;47(11):1352-1356. doi: 10.1038/ng.3403. Epub 2015 Sep 14.


Fitting the Balding-Nichols model to forensic databases.

Rohlfs RV, Aguiar VRC, Lohmueller KE, Castro AM, Ferreira ACS, Almeida VCO, Louro ID, Nielsen R.

Forensic Sci Int Genet. 2015 Nov;19:86-91. doi: 10.1016/j.fsigen.2015.05.005. Epub 2015 Jun 23.


Leveraging ancestry to improve causal variant identification in exome sequencing for monogenic disorders.

Brown R, Lee H, Eskin A, Kichaev G, Lohmueller KE, Reversade B, Nelson SF, Pasaniuc B.

Eur J Hum Genet. 2016 Jan;24(1):113-9. doi: 10.1038/ejhg.2015.68. Epub 2015 Apr 22.


Selection and reduced population size cannot explain higher amounts of Neandertal ancestry in East Asian than in European human populations.

Kim BY, Lohmueller KE.

Am J Hum Genet. 2015 Mar 5;96(3):454-61. doi: 10.1016/j.ajhg.2014.12.029. Epub 2015 Feb 12.


The distribution of deleterious genetic variation in human populations.

Lohmueller KE.

Curr Opin Genet Dev. 2014 Dec;29:139-46. Review.


Evolution. On the origin of Peter Rabbit.

Lohmueller KE.

Science. 2014 Aug 29;345(6200):1000-1. doi: 10.1126/science.1258775. No abstract available.


A model-based approach for identifying signatures of ancient balancing selection in genetic data.

DeGiorgio M, Lohmueller KE, Nielsen R.

PLoS Genet. 2014 Aug 21;10(8):e1004561. doi: 10.1371/journal.pgen.1004561. eCollection 2014 Aug.


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.


The impact of population demography and selection on the genetic architecture of complex traits.

Lohmueller KE.

PLoS Genet. 2014 May 29;10(5):e1004379. doi: 10.1371/journal.pgen.1004379. eCollection 2014.


Analysis of allelic drop-out using the Identifiler(®) and PowerPlex(®) 16 forensic STR typing systems.

Lohmueller KE, Rudin N, Inman K.

Forensic Sci Int Genet. 2014 Sep;12:1-11. doi: 10.1016/j.fsigen.2014.04.003. Epub 2014 Apr 18.


Natural selection reduced diversity on human y chromosomes.

Wilson Sayres MA, Lohmueller KE, Nielsen R.

PLoS Genet. 2014 Jan;10(1):e1004064. doi: 10.1371/journal.pgen.1004064. Epub 2014 Jan 9.


Whole-exome sequencing of 2,000 Danish individuals and the role of rare coding variants in type 2 diabetes.

Lohmueller KE, Sparsø T, Li Q, Andersson E, Korneliussen T, Albrechtsen A, Banasik K, Grarup N, Hallgrimsdottir I, Kiil K, Kilpeläinen TO, Krarup NT, Pers TH, Sanchez G, Hu Y, Degiorgio M, Jørgensen T, Sandbæk A, Lauritzen T, Brunak S, Kristiansen K, Li Y, Hansen T, Wang J, Nielsen R, Pedersen O.

Am J Hum Genet. 2013 Dec 5;93(6):1072-86. doi: 10.1016/j.ajhg.2013.11.005. Epub 2013 Nov 27. Erratum in: Am J Hum Genet. 2014 Mar 6;94(3):479.


Calculating the weight of evidence in low-template forensic DNA casework.

Lohmueller KE, Rudin N.

J Forensic Sci. 2013 Jan;58 Suppl 1:S243-9. doi: 10.1111/1556-4029.12017. Epub 2012 Oct 19.


Natural selection affects multiple aspects of genetic variation at putatively neutral sites across the human genome.

Lohmueller KE, Albrechtsen A, Li Y, Kim SY, Korneliussen T, Vinckenbosch N, Tian G, Huerta-Sanchez E, Feder AF, Grarup N, Jørgensen T, Jiang T, Witte DR, Sandbæk A, Hellmann I, Lauritzen T, Hansen T, Pedersen O, Wang J, Nielsen R.

PLoS Genet. 2011 Oct;7(10):e1002326. doi: 10.1371/journal.pgen.1002326. Epub 2011 Oct 13.


An Aboriginal Australian genome reveals separate human dispersals into Asia.

Rasmussen M, Guo X, Wang Y, Lohmueller KE, Rasmussen S, Albrechtsen A, Skotte L, Lindgreen S, Metspalu M, Jombart T, Kivisild T, Zhai W, Eriksson A, Manica A, Orlando L, De La Vega FM, Tridico S, Metspalu E, Nielsen K, Ávila-Arcos MC, Moreno-Mayar JV, Muller C, Dortch J, Gilbert MT, Lund O, Wesolowska A, Karmin M, Weinert LA, Wang B, Li J, Tai S, Xiao F, Hanihara T, van Driem G, Jha AR, Ricaut FX, de Knijff P, Migliano AB, Gallego Romero I, Kristiansen K, Lambert DM, Brunak S, Forster P, Brinkmann B, Nehlich O, Bunce M, Richards M, Gupta R, Bustamante CD, Krogh A, Foley RA, Lahr MM, Balloux F, Sicheritz-Pontén T, Villems R, Nielsen R, Wang J, Willerslev E.

Science. 2011 Oct 7;334(6052):94-8. doi: 10.1126/science.1211177. Epub 2011 Sep 22.


Estimation of allele frequency and association mapping using next-generation sequencing data.

Kim SY, Lohmueller KE, Albrechtsen A, Li Y, Korneliussen T, Tian G, Grarup N, Jiang T, Andersen G, Witte D, Jorgensen T, Hansen T, Pedersen O, Wang J, Nielsen R.

BMC Bioinformatics. 2011 Jun 11;12:231. doi: 10.1186/1471-2105-12-231.


Detecting directional selection in the presence of recent admixture in African-Americans.

Lohmueller KE, Bustamante CD, Clark AG.

Genetics. 2011 Mar;187(3):823-35. doi: 10.1534/genetics.110.122739. Epub 2010 Dec 31.


A simple genetic architecture underlies morphological variation in dogs.

Boyko AR, Quignon P, Li L, Schoenebeck JJ, Degenhardt JD, Lohmueller KE, Zhao K, Brisbin A, Parker HG, vonHoldt BM, Cargill M, Auton A, Reynolds A, Elkahloun AG, Castelhano M, Mosher DS, Sutter NB, Johnson GS, Novembre J, Hubisz MJ, Siepel A, Wayne RK, Bustamante CD, Ostrander EA.

PLoS Biol. 2010 Aug 10;8(8):e1000451. doi: 10.1371/journal.pbio.1000451.


Sex-averaged recombination and mutation rates on the X chromosome: a comment on Labuda et al.

Lohmueller KE, Degenhardt JD, Keinan A.

Am J Hum Genet. 2010 Jun 11;86(6):978-80; author reply 980-1. doi: 10.1016/j.ajhg.2010.03.021. No abstract available.


Graydon et al. provide no new evidence that forensic STR loci are functional.

Lohmueller KE.

Forensic Sci Int Genet. 2010 Jul;4(4):273-4. doi: 10.1016/j.fsigen.2009.09.006. Epub 2009 Oct 2.


The effect of recent admixture on inference of ancient human population history.

Lohmueller KE, Bustamante CD, Clark AG.

Genetics. 2010 Jun;185(2):611-22. doi: 10.1534/genetics.109.113761. Epub 2010 Apr 9.


Genome-wide SNP and haplotype analyses reveal a rich history underlying dog domestication.

Vonholdt BM, Pollinger JP, Lohmueller KE, Han E, Parker HG, Quignon P, Degenhardt JD, Boyko AR, Earl DA, Auton A, Reynolds A, Bryc K, Brisbin A, Knowles JC, Mosher DS, Spady TC, Elkahloun A, Geffen E, Pilot M, Jedrzejewski W, Greco C, Randi E, Bannasch D, Wilton A, Shearman J, Musiani M, Cargill M, Jones PG, Qian Z, Huang W, Ding ZL, Zhang YP, Bustamante CD, Ostrander EA, Novembre J, Wayne RK.

Nature. 2010 Apr 8;464(7290):898-902. doi: 10.1038/nature08837. Epub 2010 Mar 17.


Detecting ancient admixture and estimating demographic parameters in multiple human populations.

Wall JD, Lohmueller KE, Plagnol V.

Mol Biol Evol. 2009 Aug;26(8):1823-7. doi: 10.1093/molbev/msp096. Epub 2009 May 6.


Methods for human demographic inference using haplotype patterns from genomewide single-nucleotide polymorphism data.

Lohmueller KE, Bustamante CD, Clark AG.

Genetics. 2009 May;182(1):217-31. doi: 10.1534/genetics.108.099275. Epub 2009 Mar 2.


Global distribution of genomic diversity underscores rich complex history of continental human populations.

Auton A, Bryc K, Boyko AR, Lohmueller KE, Novembre J, Reynolds A, Indap A, Wright MH, Degenhardt JD, Gutenkunst RN, King KS, Nelson MR, Bustamante CD.

Genome Res. 2009 May;19(5):795-803. doi: 10.1101/gr.088898.108. Epub 2009 Feb 13.


Assessing the evolutionary impact of amino acid mutations in the human genome.

Boyko AR, Williamson SH, Indap AR, Degenhardt JD, Hernandez RD, Lohmueller KE, Adams MD, Schmidt S, Sninsky JJ, Sunyaev SR, White TJ, Nielsen R, Clark AG, Bustamante CD.

PLoS Genet. 2008 May 30;4(5):e1000083. doi: 10.1371/journal.pgen.1000083.


Proportionally more deleterious genetic variation in European than in African populations.

Lohmueller KE, Indap AR, Schmidt S, Boyko AR, Hernandez RD, Hubisz MJ, Sninsky JJ, White TJ, Sunyaev SR, Nielsen R, Clark AG, Bustamante CD.

Nature. 2008 Feb 21;451(7181):994-7. doi: 10.1038/nature06611.


Analysis of genetic variation in Ashkenazi Jews by high density SNP genotyping.

Olshen AB, Gold B, Lohmueller KE, Struewing JP, Satagopan J, Stefanov SA, Eskin E, Kirchhoff T, Lautenberger JA, Klein RJ, Friedman E, Norton L, Ellis NA, Viale A, Lee CS, Borgen PI, Clark AG, Offit K, Boyd J.

BMC Genet. 2008 Feb 5;9:14. doi: 10.1186/1471-2156-9-14.


Patterns of genetic variation in the hypertension candidate gene GRK4: ethnic variation and haplotype structure.

Lohmueller KE, Wong LJ, Mauney MM, Jiang L, Felder RA, Jose PA, Williams SM.

Ann Hum Genet. 2006 Jan;70(Pt 1):27-41.


Variants associated with common disease are not unusually differentiated in frequency across populations.

Lohmueller KE, Mauney MM, Reich D, Braverman JM.

Am J Hum Genet. 2006 Jan;78(1):130-6. Epub 2005 Nov 16.

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