Montgomery Slatkin

Montgomery Slatkin

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Montgomery Slatkin

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F between archaic and present-day samples.

Heredity (Edinb) 2019 Jun 11;122(6):711-718. Epub 2018 Dec 11.

Department of Integrative Biology, University of California, Berkeley, CA, 94720-3140, USA.

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http://dx.doi.org/10.1038/s41437-018-0169-8DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6781139PMC
June 2019

Genome-wide divergence among invasive populations of Aedes aegypti in California.

BMC Genomics 2019 Mar 12;20(1):204. Epub 2019 Mar 12.

Department of Entomology and Nematology, College of Agricultural and Environmental Sciences, University of California - Davis, Davis, CA, 95616, USA.

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http://dx.doi.org/10.1186/s12864-019-5586-4DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6417271PMC
March 2019

40,000-Year-Old Individual from Asia Provides Insight into Early Population Structure in Eurasia.

Curr Biol 2017 Oct 12;27(20):3202-3208.e9. Epub 2017 Oct 12.

Key Laboratory of Vertebrate Evolution and Human Origins of Chinese Academy of Sciences, Institute of Vertebrate Paleontology and Paleoanthropology, Chinese Academy of Sciences, Beijing 100044, China; Laboratory on Molecular Paleontology of the Max Planck Institute for Evolutionary Anthropology and the Institute of Vertebrate Paleontology and Paleoanthropology, Chinese Academy of Sciences, Beijing 100044, China. Electronic address:

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http://dx.doi.org/10.1016/j.cub.2017.09.030DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6592271PMC
October 2017

Determination of genetic relatedness from low-coverage human genome sequences using pedigree simulations.

Mol Ecol 2017 Aug 7;26(16):4145-4157. Epub 2017 Jul 7.

Center for Theoretical Evolutionary Genomics, Department of Integrative Biology, University of California Berkeley, Berkeley, CA, USA.

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http://dx.doi.org/10.1111/mec.14188DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6485253PMC
August 2017

Joint Estimation of Relatedness Coefficients and Allele Frequencies from Ancient Samples.

Genetics 2017 06 10;206(2):1025-1035. Epub 2017 Apr 10.

Department of Integrative Biology, University of California, Berkeley, California 94720.

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http://dx.doi.org/10.1534/genetics.117.200600DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5499161PMC
June 2017

Excess of genomic defects in a woolly mammoth on Wrangel island.

PLoS Genet 2017 03 2;13(3):e1006601. Epub 2017 Mar 2.

Department of Integrative Biology, University of California, Berkeley, Berkeley, California, United States of America.

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http://dx.doi.org/10.1371/journal.pgen.1006601DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5333797PMC
March 2017

Distinguishing recent admixture from ancestral population structure.

Genome Biol Evol 2017 Feb 10. Epub 2017 Feb 10.

Department of Integrative Biology, University of California, Berkeley.

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http://dx.doi.org/10.1093/gbe/evx018DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5381645PMC
February 2017

Statistical methods for analyzing ancient DNA from hominins.

Curr Opin Genet Dev 2016 Dec 5;41:72-76. Epub 2016 Sep 5.

Department of Integrative Biology, University of California, Berkeley, CA 94720-3140, USA. Electronic address:

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http://dx.doi.org/10.1016/j.gde.2016.08.004DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5161690PMC
December 2016

Ancient DNA and human history.

Proc Natl Acad Sci U S A 2016 Jun 6;113(23):6380-7. Epub 2016 Jun 6.

Department of Integrative Biology, University of California, Berkeley, CA 94720-3140.

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http://dx.doi.org/10.1073/pnas.1524306113DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4988579PMC
June 2016

Bayesian Inference of Natural Selection from Allele Frequency Time Series.

Genetics 2016 05 23;203(1):493-511. Epub 2016 Mar 23.

Department of Integrative Biology, University of California, Berkeley, California 94720.

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http://dx.doi.org/10.1534/genetics.116.187278DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4858794PMC
May 2016

Isolation-by-distance-and-time in a stepping-stone model.

Theor Popul Biol 2016 Apr 21;108:24-35. Epub 2015 Nov 21.

Department of Integrative Biology, University of California Berkeley, Berkeley, CA 94720, United States.

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https://linkinghub.elsevier.com/retrieve/pii/S00405809150011
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http://dx.doi.org/10.1016/j.tpb.2015.11.003DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4779737PMC
April 2016

Joint Estimation of Contamination, Error and Demography for Nuclear DNA from Ancient Humans.

PLoS Genet 2016 Apr 6;12(4):e1005972. Epub 2016 Apr 6.

Department of Integrative Biology, University of California, Berkeley, Berkeley, California, United States of America.

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http://dx.doi.org/10.1371/journal.pgen.1005972DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4822957PMC
April 2016

Using Ancient Samples in Projection Analysis.

G3 (Bethesda) 2015 Nov 6;6(1):99-105. Epub 2015 Nov 6.

Department of Integrative Biology, University of California, Berkeley, Calfornia 94720-3140.

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http://dx.doi.org/10.1534/g3.115.023788DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4704729PMC
November 2015

New insights into the history of the C-14010 lactase persistence variant in Eastern and Southern Africa.

Am J Phys Anthropol 2015 Apr 2;156(4):661-4. Epub 2014 Dec 2.

Department of Evolutionary Genetics, Max Planck Institute for Evolutionary Anthropology, 04103, Leipzig, Germany.

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http://dx.doi.org/10.1002/ajpa.22675DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4368481PMC
April 2015

The effective founder effect in a spatially expanding population.

Evolution 2015 Mar 10;69(3):721-34. Epub 2015 Mar 10.

Department of Integrative Biology, University of California, Berkeley, California, 94720; Current address: Department of Human Genetics, University of Chicago, Chicago, Illinois, 60637.

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http://dx.doi.org/10.1111/evo.12609DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5104172PMC
March 2015

A hidden Markov model for investigating recent positive selection through haplotype structure.

Theor Popul Biol 2015 Feb 13;99:18-30. Epub 2014 Nov 13.

Department of Integrative Biology, University of California, Berkeley, CA 94720, United States. Electronic address:

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https://linkinghub.elsevier.com/retrieve/pii/S00405809140009
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http://dx.doi.org/10.1016/j.tpb.2014.11.001DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4277924PMC
February 2015

A test for ancient selective sweeps and an application to candidate sites in modern humans.

Mol Biol Evol 2014 Dec 28;31(12):3344-58. Epub 2014 Aug 28.

Department of Integrative Biology, University of California, Berkeley.

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http://dx.doi.org/10.1093/molbev/msu255DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4245817PMC
December 2014

The projection of a test genome onto a reference population and applications to humans and archaic hominins.

Genetics 2014 Dec 15;198(4):1655-70. Epub 2014 Oct 15.

Department of Integrative Biology, University of California, Berkeley, California 94720

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http://dx.doi.org/10.1534/genetics.112.145359DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4256778PMC
December 2014

Ancient human genomes suggest three ancestral populations for present-day Europeans.

Authors:
Iosif Lazaridis Nick Patterson Alissa Mittnik Gabriel Renaud Swapan Mallick Karola Kirsanow Peter H Sudmant Joshua G Schraiber Sergi Castellano Mark Lipson Bonnie Berger Christos Economou Ruth Bollongino Qiaomei Fu Kirsten I Bos Susanne Nordenfelt Heng Li Cesare de Filippo Kay Prüfer Susanna Sawyer Cosimo Posth Wolfgang Haak Fredrik Hallgren Elin Fornander Nadin Rohland Dominique Delsate Michael Francken Jean-Michel Guinet Joachim Wahl George Ayodo Hamza A Babiker Graciela Bailliet Elena Balanovska Oleg Balanovsky Ramiro Barrantes Gabriel Bedoya Haim Ben-Ami Judit Bene Fouad Berrada Claudio M Bravi Francesca Brisighelli George B J Busby Francesco Cali Mikhail Churnosov David E C Cole Daniel Corach Larissa Damba George van Driem Stanislav Dryomov Jean-Michel Dugoujon Sardana A Fedorova Irene Gallego Romero Marina Gubina Michael Hammer Brenna M Henn Tor Hervig Ugur Hodoglugil Aashish R Jha Sena Karachanak-Yankova Rita Khusainova Elza Khusnutdinova Rick Kittles Toomas Kivisild William Klitz Vaidutis Kučinskas Alena Kushniarevich Leila Laredj Sergey Litvinov Theologos Loukidis Robert W Mahley Béla Melegh Ene Metspalu Julio Molina Joanna Mountain Klemetti Näkkäläjärvi Desislava Nesheva Thomas Nyambo Ludmila Osipova Jüri Parik Fedor Platonov Olga Posukh Valentino Romano Francisco Rothhammer Igor Rudan Ruslan Ruizbakiev Hovhannes Sahakyan Antti Sajantila Antonio Salas Elena B Starikovskaya Ayele Tarekegn Draga Toncheva Shahlo Turdikulova Ingrida Uktveryte Olga Utevska René Vasquez Mercedes Villena Mikhail Voevoda Cheryl A Winkler Levon Yepiskoposyan Pierre Zalloua Tatijana Zemunik Alan Cooper Cristian Capelli Mark G Thomas Andres Ruiz-Linares Sarah A Tishkoff Lalji Singh Kumarasamy Thangaraj Richard Villems David Comas Rem Sukernik Mait Metspalu Matthias Meyer Evan E Eichler Joachim Burger Montgomery Slatkin Svante Pääbo Janet Kelso David Reich Johannes Krause

Nature 2014 Sep;513(7518):409-13

1] Institute for Archaeological Sciences, University of Tübingen, Tübingen 72074, Germany. [2] Senckenberg Centre for Human Evolution and Palaeoenvironment, University of Tübingen, 72070 Tübingen, Germany. [3] Max Planck Institut für Geschichte und Naturwissenschaften, Jena 07745, Germany.

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https://genetics.med.harvard.edu/reich/Reich_Lab/Welcome_fil
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http://biorxiv.org/content/biorxiv/early/2013/12/23/001552.f
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http://www.nature.com/doifinder/10.1038/nature13673
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http://dx.doi.org/10.1038/nature13673DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4170574PMC
September 2014

Tracing pastoralist migrations to southern Africa with lactase persistence alleles.

Curr Biol 2014 Apr 3;24(8):875-9. Epub 2014 Apr 3.

Department of Evolutionary Genetics, Max Planck Institute for Evolutionary Anthropology, Deutscher Platz 6, 04103 Leipzig, Germany. Electronic address:

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http://dx.doi.org/10.1016/j.cub.2014.03.027DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5102062PMC
April 2014

The influence of relatives on the efficiency and error rate of familial searching.

PLoS One 2013 14;8(8):e70495. Epub 2013 Aug 14.

Department of Integrative Biology, University of California, Berkeley, California, United States of America.

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http://journals.plos.org/plosone/article?id=10.1371/journal.pone.0070495PLOS
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3743829PMC
March 2014

A method for estimating the effective number of loci affecting a quantitative character.

Theor Popul Biol 2013 Nov 22;89:44-54. Epub 2013 Aug 22.

Department of Integrative Biology, University of California, Berkeley, CA 94720-3140, USA. Electronic address:

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http://dx.doi.org/10.1016/j.tpb.2013.08.002DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3797156PMC
November 2013

Detecting range expansions from genetic data.

Evolution 2013 Nov 27;67(11):3274-89. Epub 2013 Aug 27.

Department of Integrative Biology, University of California, Berkeley, California, 94720.

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http://dx.doi.org/10.1111/evo.12202DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4282923PMC
November 2013

Inferring selection intensity and allele age from multilocus haplotype structure.

G3 (Bethesda) 2013 Aug 7;3(8):1429-42. Epub 2013 Aug 7.

Department of Integrative Biology, University of California, Berkeley, California 94720, USA.

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http://dx.doi.org/10.1534/g3.113.006197DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3737182PMC
August 2013

Genomic evidence for island population conversion resolves conflicting theories of polar bear evolution.

PLoS Genet 2013 14;9(3):e1003345. Epub 2013 Mar 14.

Department of Ecology and Evolutionary Biology, University of California Santa Cruz, Santa Cruz, California, United States of America.

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https://dx.plos.org/10.1371/journal.pgen.1003345
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http://dx.doi.org/10.1371/journal.pgen.1003345DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3597504PMC
June 2013

Higher levels of neanderthal ancestry in East Asians than in Europeans.

Genetics 2013 May 14;194(1):199-209. Epub 2013 Feb 14.

Institute for Human Genetics, University of California, San Francisco, California 94143, USA.

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http://dx.doi.org/10.1534/genetics.112.148213DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3632468PMC
May 2013

Paleopopulation genetics.

Annu Rev Genet 2012 17;46:635-49. Epub 2012 Sep 17.

Institute for Human Genetics and Department of Epidemiology and Biostatistics, University of California, San Francisco, California 94134, USA.

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http://dx.doi.org/10.1146/annurev-genet-110711-155557DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5102055PMC
April 2013

A sequence-based approach demonstrates that balancing selection in classical human leukocyte antigen (HLA) loci is asymmetric.

Hum Mol Genet 2013 Jan 12;22(2):252-61. Epub 2012 Oct 12.

Department of Integrative Biology, University of California, Berkeley, CA 94720-3140, USA.

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http://dx.doi.org/10.1093/hmg/dds424DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3526157PMC
January 2013

Genomic tests of variation in inbreeding among individuals and among chromosomes.

Genetics 2012 Dec 10;192(4):1477-82. Epub 2012 Oct 10.

Department of Integrative Biology, University of California, Berkeley, CA 94720-3140, USA.

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http://dx.doi.org/10.1534/genetics.112.145367DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3512152PMC
December 2012

Ancient structure in Africa unlikely to explain Neanderthal and non-African genetic similarity.

Mol Biol Evol 2012 Oct 18;29(10):2987-95. Epub 2012 Apr 18.

Department of Integrative Biology, University of California, Berkeley.

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http://dx.doi.org/10.1093/molbev/mss117DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3457770PMC
October 2012

Estimating allele age and selection coefficient from time-serial data.

Genetics 2012 Oct 30;192(2):599-607. Epub 2012 Jul 30.

Centre for Geogenetics, Natural History Museum of Denmark, University of Copenhagen, 1350 Copenhagen, Denmark.

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http://dx.doi.org/10.1534/genetics.112.140939DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3454883PMC
October 2012

Serial founder effects during range expansion: a spatial analog of genetic drift.

Genetics 2012 May 23;191(1):171-81. Epub 2012 Feb 23.

Department of Integrative Biology, University of California, Berkeley, California 94720-3140, USA.

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http://dx.doi.org/10.1534/genetics.112.139022DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3338258PMC
May 2012

Using known QTLs to detect directional epistatic interactions.

Genet Res (Camb) 2012 Feb;94(1):39-48

Department of Integrative Biology, University of California, Berkeley, 94720-3140, USA.

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http://dx.doi.org/10.1017/S0016672312000043DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5108529PMC
February 2012

Evolution of patterns on Conus shells.

Proc Natl Acad Sci U S A 2012 Jan 4;109(5):E234-41. Epub 2012 Jan 4.

Department of Electrical Engineering and Computer Science, University of California, Berkeley, CA 94720, USA.

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http://dx.doi.org/10.1073/pnas.1119859109DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3277106PMC
January 2012

Testing for ancient admixture between closely related populations.

Mol Biol Evol 2011 Aug 15;28(8):2239-52. Epub 2011 Feb 15.

Department of Integrative Biology, University of California, Berkeley, CA, USA.

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http://dx.doi.org/10.1093/molbev/msr048DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3144383PMC
August 2011

Match probabilities in a finite, subdivided population.

Theor Popul Biol 2011 May 23;79(3):55-63. Epub 2011 Jan 23.

Department of Integrative Biology, University of California, Berkeley, CA 94720, USA.

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http://dx.doi.org/10.1016/j.tpb.2011.01.003DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3065509PMC
May 2011

General epistatic models of the risk of complex diseases.

Genetics 2010 Dec 20;186(4):1467-73. Epub 2010 Sep 20.

Department of Electrical Engineering, University of California, Berkeley, California 94720-3140, USA.

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http://www.genetics.org/cgi/doi/10.1534/genetics.110.119008
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http://dx.doi.org/10.1534/genetics.110.119008DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2998324PMC
December 2010

Likelihood-based inference in isolation-by-distance models using the spatial distribution of low-frequency alleles.

Evolution 2009 Nov 16;63(11):2914-25. Epub 2009 Jul 16.

Department of Ecology and Evolutionary Biology, Interdepartmental Program in Bioinformatics, University of California Los Angeles, Los Angeles, California 90095, USA.

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http://dx.doi.org/10.1111/j.1558-5646.2009.00775.xDOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3989113PMC
November 2009

Inference of microbial recombination rates from metagenomic data.

PLoS Genet 2009 Oct 2;5(10):e1000674. Epub 2009 Oct 2.

Biophysics Graduate Group, University of California Berkeley, Berkeley, California, United States of America.

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http://dx.doi.org/10.1371/journal.pgen.1000674DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2745702PMC
October 2009

Epigenetic inheritance and the missing heritability problem.

Genetics 2009 Jul 4;182(3):845-50. Epub 2009 May 4.

Department of Integrative Biology, University of California, Berkeley, California 94720-3140, USA.

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http://dx.doi.org/10.1534/genetics.109.102798DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2710163PMC
July 2009

An investigation of the statistical power of neutrality tests based on comparative and population genetic data.

Mol Biol Evol 2009 Feb 14;26(2):273-83. Epub 2008 Oct 14.

Department of Integrative Biology, University of California, Berkeley, USA.

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http://dx.doi.org/10.1093/molbev/msn231DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2727393PMC
February 2009

Average probability that a "cold hit" in a DNA database search results in an erroneous attribution.

J Forensic Sci 2009 Jan 21;54(1):22-7. Epub 2008 Nov 21.

Departments of EECS and Statistics, University of California, Berkeley, CA 94720-3140, USA.

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http://dx.doi.org/10.1111/j.1556-4029.2008.00917.xDOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5124364PMC
January 2009

Subdivision in an ancestral species creates asymmetry in gene trees.

Mol Biol Evol 2008 Oct 9;25(10):2241-6. Epub 2008 Aug 9.

Department of Integrative Biology, University of California at Berkeley, USA.

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http://dx.doi.org/10.1093/molbev/msn172DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2734134PMC
October 2008

Exchangeable models of complex inherited diseases.

Genetics 2008 Aug 9;179(4):2253-61. Epub 2008 Aug 9.

Department of Integrative Biology, University of California, Berkeley, California 94720-3140, USA.

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http://dx.doi.org/10.1534/genetics.107.077719DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2516095PMC
August 2008

Genotype-specific recurrence risks as indicators of the genetic architecture of complex diseases.

Am J Hum Genet 2008 Jul;83(1):120-6

Department of Integrative Biology, University of California, Berkeley, CA 94720-3140, USA.

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http://dx.doi.org/10.1016/j.ajhg.2008.06.011DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2443843PMC
July 2008

Linkage disequilibrium--understanding the evolutionary past and mapping the medical future.

Nat Rev Genet 2008 Jun;9(6):477-85

Department of Integrative Biology, University of California, Berkeley, California 94720-3140, USA.

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http://dx.doi.org/10.1038/nrg2361DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5124487PMC
June 2008

A Bayesian method for jointly estimating allele age and selection intensity.

Genet Res (Camb) 2008 Feb;90(1):129-37

Department of Integrative Biology, 3060 VLSB, University of California at Berkeley, Berkeley, CA 94720-3140, USA.

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http://dx.doi.org/10.1017/S0016672307008944DOI Listing
February 2008

Accounting for bias from sequencing error in population genetic estimates.

Mol Biol Evol 2008 Jan 2;25(1):199-206. Epub 2007 Nov 2.

Biophysics Graduate Group, University of California, Berkeley, USA.

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http://dx.doi.org/10.1093/molbev/msm239DOI Listing
January 2008

Inbreeding coefficients and coalescence times.

Genet Res 2007 Dec;89(5-6):479-87

Department of Integrative Biology, University of California, Berkeley, CA 94720, USA.

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http://dx.doi.org/10.1017/S0016672308009671DOI Listing
December 2007

The joint allele-frequency spectrum in closely related species.

Genetics 2007 Sep 1;177(1):387-98. Epub 2007 Jul 1.

Department of Integrative Biology, University of California, Berkeley, California 94720, USA.

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http://www.genetics.org/lookup/doi/10.1534/genetics.107.0707
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http://dx.doi.org/10.1534/genetics.107.070730DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2013700PMC
September 2007

Exploring variation in the d(N)/d(S) ratio among sites and lineages using mutational mappings: applications to the influenza virus.

J Mol Evol 2007 Sep 11;65(3):340-8. Epub 2007 Sep 11.

Department of Integrative Biology, University of California Berkeley, Berkeley, CA 94720-3140, USA.

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http://dx.doi.org/10.1007/s00239-007-9019-7DOI Listing
September 2007

A graphical approach to multi-locus match probability computation: revisiting the product rule.

Theor Popul Biol 2007 Aug 15;72(1):96-110. Epub 2006 Dec 15.

Department of Computer Science, University of California, Davis, CA 95616, USA.

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http://dx.doi.org/10.1016/j.tpb.2006.11.005DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2268388PMC
August 2007

Estimating the number of founder lineages from haplotypes of closely linked SNPs.

Mol Ecol 2007 Jun;16(11):2237-45

Department of Integrative Biology, University of California at Berkeley, Berkeley, CA 9472-3140, USA.

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http://dx.doi.org/10.1111/j.1365-294X.2007.03288.xDOI Listing
June 2007

Estimation of the number of individuals founding colonized populations.

Evolution 2007 Apr;61(4):972-83

Fisheries Ecology Division, Southwest Fisheries Science Center, 110 Shaffer Road, Santa Cruz, California 95060, USA.

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http://dx.doi.org/10.1111/j.1558-5646.2007.00080.xDOI Listing
April 2007

Non-equilibrium theory of the allele frequency spectrum.

Theor Popul Biol 2007 Feb 23;71(1):109-19. Epub 2006 Jun 23.

Department of Statistics #3860, University of California at Berkeley, 367 Evans Hall, Berkeley, CA 94720-3860, USA.

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http://dx.doi.org/10.1016/j.tpb.2006.06.005DOI Listing
February 2007

Inference of population genetic parameters in metagenomics: a clean look at messy data.

Genome Res 2006 Oct 5;16(10):1320-7. Epub 2006 Sep 5.

Biophysics Graduate Group, University of California, Berkeley, California 94720, USA.

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http://dx.doi.org/10.1101/gr.5431206DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC1581441PMC
October 2006

The concordance of gene trees and species trees at two linked loci.

Genetics 2006 Mar 15;172(3):1979-84. Epub 2005 Dec 15.

Department of Integrative Biology, University of California, Berkeley, California 94720-3140, USA.

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http://dx.doi.org/10.1534/genetics.105.049593DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC1456312PMC
March 2006

Multiplex amplification of the mammoth mitochondrial genome and the evolution of Elephantidae.

Nature 2006 Feb 18;439(7077):724-7. Epub 2005 Dec 18.

Max Planck Institute for Evolutionary Anthropology, Deutscher Platz 6, D-04103 Leipzig, Germany.

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http://www.nature.com/articles/nature04432
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http://dx.doi.org/10.1038/nature04432DOI Listing
February 2006

The extent of linkage disequilibrium caused by selection on G6PD in humans.

Genetics 2005 Nov 14;171(3):1219-29. Epub 2005 Jul 14.

Department of Ecology and Evolutionary Biology, University of Arizona, Tucson, Arizona 85721, USA.

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http://dx.doi.org/10.1534/genetics.105.048140DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC1456824PMC
November 2005

The geographic spread of the CCR5 Delta32 HIV-resistance allele.

PLoS Biol 2005 Nov 18;3(11):e339. Epub 2005 Oct 18.

Department of Integrative Biology, University of California, Berkeley, California, United States of America.

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http://dx.doi.org/10.1371/journal.pbio.0030339DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC1255740PMC
November 2005

Seeing ghosts: the effect of unsampled populations on migration rates estimated for sampled populations.

Mol Ecol 2005 Jan;14(1):67-73

Department of Integrative Biology, University of California, Berkeley, CA 94720-3140, USA.

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http://dx.doi.org/10.1111/j.1365-294X.2004.02393.xDOI Listing
January 2005

A population-genetic test of founder effects and implications for Ashkenazi Jewish diseases.

Am J Hum Genet 2004 Aug 18;75(2):282-93. Epub 2004 Jun 18.

Department of Integrative Biology, University of California Berkeley, Berkeley, CA 94720, USA.

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http://dx.doi.org/10.1086/423146DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC1216062PMC
August 2004

Breed distribution and history of canine mdr1-1Delta, a pharmacogenetic mutation that marks the emergence of breeds from the collie lineage.

Proc Natl Acad Sci U S A 2004 Aug 2;101(32):11725-30. Epub 2004 Aug 2.

Veterinary Genetics Laboratory, School of Veterinary Medicine, University of California, Davis, CA 95616, USA.

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http://dx.doi.org/10.1073/pnas.0402374101DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC511012PMC
August 2004

Population-genetic basis of haplotype blocks in the 5q31 region.

Am J Hum Genet 2004 Jan 17;74(1):40-9. Epub 2003 Dec 17.

Department of Integrative Biology, University of California at Berkeley, Berkeley, CA 94720, USA.

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http://www.ncbi.nlm.nih.gov/pmc/articles/PMC1181911PMC
http://dx.doi.org/10.1086/381040DOI Listing
January 2004

Intense selection in an age-structured population.

Proc Biol Sci 2004 Jan;271(1535):171-6

Department of Integrative Biology, University of California, Berkeley, CA 94720, USA.

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http://dx.doi.org/10.1098/rspb.2003.2573DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC1691582PMC
January 2004

Evaluating plague and smallpox as historical selective pressures for the CCR5-Delta 32 HIV-resistance allele.

Proc Natl Acad Sci U S A 2003 Dec 25;100(25):15276-9. Epub 2003 Nov 25.

Department of Integrative Biology, University of California, Berkeley, CA 94720, USA.

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http://dx.doi.org/10.1073/pnas.2435085100DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC299980PMC
December 2003

The loss of statistical power to distinguish populations when certain samples are ambiguous.

Theor Popul Biol 2003 Sep;64(2):177-92

Department of Integrative Biology, University of California, 3060 Valley Life Sciences, Bldg. 3140 (4151-4155 VLSB), Berkeley, CA 94720-3140, USA.

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http://dx.doi.org/10.1016/s0040-5809(03)00084-4DOI Listing
September 2003

On selecting markers for association studies: patterns of linkage disequilibrium between two and three diallelic loci.

Genet Epidemiol 2003 Jan;24(1):57-67

Department of Medicine, University of California, Irvine, California 92697-7550, USA.

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http://dx.doi.org/10.1002/gepi.10217DOI Listing
January 2003

A vectorized method of importance sampling with applications to models of mutation and migration.

Theor Popul Biol 2002 Dec;62(4):339-48

Department of Integrative Biology, University of California, Berkeley, California 94720-3140, USA.

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http://dx.doi.org/10.1016/s0040-5809(02)00007-2DOI Listing
December 2002

Multiplex relative risk and estimation of the number of loci underlying an inherited disease.

Am J Hum Genet 2002 Dec 21;71(6):1369-85. Epub 2002 Nov 21.

Department of Integrative Biology, University of California, Berkeley, USA.

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http://dx.doi.org/10.1086/344779DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC378577PMC
December 2002

Multilocus self-recognition systems in fungi as a cause of trans-species polymorphism.

Genetics 2002 Jun;161(2):633-41

Department of Integrative Biology, University of California, Berkeley, California 94720-3140, USA.

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http://www.ncbi.nlm.nih.gov/pmc/articles/PMC1462126PMC
June 2002

Likelihood-based disequilibrium mapping for two-marker haplotype data.

Theor Popul Biol 2002 Mar;61(2):153-61

Department of Integrative Biology, University of California, Berkeley, California 94720-3140, USA.

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http://dx.doi.org/10.1006/tpbi.2001.1562DOI Listing
March 2002

MAXIMUM-LIKELIHOOD ESTIMATION OF POPULATION DIVERGENCE TIMES AND POPULATION PHYLOGENY IN MODELS WITHOUT MUTATION.

Evolution 1998 Jun;52(3):669-677

Department of Integrative Biology, University of California, Berkeley, California, 94720-3140.

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http://dx.doi.org/10.1111/j.1558-5646.1998.tb03692.xDOI Listing
June 1998

SEARCHING FOR EVOLUTIONARY PATTERNS IN THE SHAPE OF A PHYLOGENETIC TREE.

Evolution 1993 Aug;47(4):1171-1181

Department of Integrative Biology, University of California, Berkeley, California, 94720.

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http://dx.doi.org/10.1111/j.1558-5646.1993.tb02144.xDOI Listing
August 1993

PEAK SHIFTS PRODUCED BY CORRELATED RESPONSE TO SELECTION.

Evolution 1993 Feb;47(1):280-290

Department of Integrative Biology, University of California, Berkeley, CA, 97420, USA.

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http://dx.doi.org/10.1111/j.1558-5646.1993.tb01216.xDOI Listing
February 1993

ISOLATION BY DISTANCE IN EQUILIBRIUM AND NON-EQUILIBRIUM POPULATIONS.

Evolution 1993 Feb;47(1):264-279

Department of Integrative Biology, University of California, Berkeley, CA, 94720, USA.

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http://doi.wiley.com/10.1111/j.1558-5646.1993.tb01215.x
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http://dx.doi.org/10.1111/j.1558-5646.1993.tb01215.xDOI Listing
February 1993

NULL MODELS FOR THE NUMBER OF EVOLUTIONARY STEPS IN A CHARACTER ON A PHYLOGENETIC TREE.

Evolution 1991 Aug;45(5):1184-1197

Department of Integrative Biology, University of California, Berkeley, CA, 94720, USA.

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http://dx.doi.org/10.1111/j.1558-5646.1991.tb04385.xDOI Listing
August 1991

A COMPARISON OF THREE INDIRECT METHODS FOR ESTIMATING AVERAGE LEVELS OF GENE FLOW.

Evolution 1989 Nov;43(7):1349-1368

Department of Genetics and Biometry, University College London, 4 Stephenson Way, London, NW1 2EH, UNITED KINGDOM.

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http://dx.doi.org/10.1111/j.1558-5646.1989.tb02587.xDOI Listing
November 1989

QUANTITATIVE GENETICS OF HETEROCHRONY.

Evolution 1987 Jul;41(4):799-811

Department of Zoology, University of California, Berkeley, CA, 94720.

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http://dx.doi.org/10.1111/j.1558-5646.1987.tb05854.xDOI Listing
July 1987