The Hammer Lab | Select Publications

2007

Woerner, A.E., M.P. Cox and M.F. Hammer.
Recombination-Filtered Genomic Datasets by Information Maximization.

Bioinformatics 23:1851-1853. | View as .pdf.

Garrigan DW, Kingan SB, Pilkington MM, Wilder JA, Cox MP, Soodyall H, Strassmann B, Destro-Bisol G, de Knijff P, Novelletto A, Friedlaender J, Hammer MF.
Inferring Human Population Sizes, Divergence Times and Rates of Gene Flow from Mitochondrial, X and Y Chromosome Resequencing Data.

Genetics: in press | Supplementary Data. | Not yet available as .pdf

Walsh JB, AJ Redd, MF Hammer
Joint match probabilities for Y chromosomal and autosomal markers.

For. Sci. Internat.: in press | View as .pdf.

Chaix R, Quintana-Murci L, Hegay T, Hammer MF, Mobasher Z, Austerlitz F, Heyer E
From social to genetic structures in central Asia.

Curr Biol 17: 43-48 | View as .pdf.

Lansing JS, Cox MP, Downey SS, Hallmark B, Karafet TM, Norquest P, Gabler BM, Schoenfelder JW Sudoyo H, Watkins JC, Hammer MF
Language-gene co-evolution writ small: Contact induced language change on the eastern Indonesian island of Sumba.

Proc Natl Acad Sci USA: in press | View as .pdf.

Pilkington MM, Angui T, Cox MP, Kingan S, Mobasher Z, Batini C, Destro-Bisol G, Soodyall H, Strassmann BI, Hammer MF
Contrasting signatures of population growth for mitochondrial DNA and Y chromosomes among human populations in Africa.

Mol. Biol. Evol.: in press | Not yet available as .pdf.

Cox MP, Redd A, Karafet TM, Ponder CA, Lansing JS, Sudoyo H, Hammer MF
A Polynesian Motif on the Y chromosome.

Hum. Biol.: in press | Not yet available as .pdf.

Wilder JA, Hammer MF
Extraordinary population structure among the Baining of New Britain.

Genes, Language and Culture History in the Southwest Pacific, Friedlaender JS (ed).
Oxford University Press, Oxford, pp 199-207. | Not yet available as .pdf.

Scheinfeldt L, Friedlaender F, Friedlaender J, Latham Krista, Koki G, Karafet T, Hammer MF, Lorenz J
Unexpected NRY chromosome variation in Northern Island Melanesia.

Genes, Language and Culture History in the Southwest Pacific, Friedlaender JS (ed).
Oxford University Press, Oxford, pp 81-95. | View as .pdf.

Karafet TM, LP Osipova, and MF Hammer
The effect of history and life-style on genetic structure of North Asian populations.

Sagart L, R Blench, and A Sanchez-Mazas (eds).
London and New York: Routledge Curzon: in press | Not yet available as .pdf.

2006

Redd AJ, VA Contreras, VA Kearney, D Stover, T Karafet, and MF Hammer
Genetic structure among 38 populations from the United States based on 11 U.S. core Y chromosome STRs.

J Foren Sci 51:580-585. | Not yet available as .pdf.

Wall JD, Hammer MF
Archaic admixture in the human genome.

Curr. Opin. Genet. Devel. 16: 606-610. | Not yet available as .pdf.

Scheinfeldt L, Friedlaender F, Friedlaender J, Latham Krista, Koki G, Karafet T, Hammer MF, Lorenz J
Unexpected NRY chromosome variation in Northern Island Melanesia.

Mol Biol Evol 23: 1628-1641. | Not yet available as .pdf.

Karafet TM, SL Zegura, and MF Hammer
Historical peopling of new lands: an ancient link between Asia and Americas.

Vestnik VOGIS (Russian language). | Not yet available as .pdf.

Karafet TM, SL Zegura, and MF Hammer
Y Chromosome Variation.

Handbook of North American Indians, vol. 3, Environment, Origins, and Population. E Szathmary (ed).
Smithsonian Institute, Washington, pp 831-839. | Not yet available as .pdf.

Lansing JS, TM Karafet, J Schoenfelder, and MF Hammer
A DNA signature for the expansion of irrigation in Bali.

Sagart L, R Blench, and A Sanchez-Mazas (eds).
London and New York: Routledge Curzon.: in press. | Not yet available as .pdf.

Garrigan DW, Hammer MF.
Reconstructing human origins in the genomic era.

Nature Rev Genet. 2006 Sep; 7 (9): in press | Supplementary Data.| Not yet available as .pdf

2005

Osipova LP, TM Karafet, LE Tabikhanova, OV Andreenkov, OV Ilina, and MF Hammer
Genetic structure of indigenous peoples in Shuryshkarskiy District of Yamal-Nenets Autonomous Region:
classical blood groups and Y-chromosome markers.

Osipova L.P (ed). Native Peoples in Shuryshkarskiy District of Yamal-Nenets Autonomous Region: demographic, genetic and medical aspects.
Novosibirsk. P 77-107 (in Russian). | Not yet available as .pdf

Garrigan D, Mobasher Z, Kingan SB, Wilder JA, Hammer MF.
Deep haplotype divergence and long-range linkage disequilibrium at xp21.1 provide evidence that humans descend from a structured ancestral population.

Genetics. 2005 Aug;170(4):1849-56. 2005 Jun 3. | View as .pdf

Garrigan D, Mobasher Z, Severson T, Wilder JA, Hammer MF.
Evidence for archaic Asian ancestry on the human X chromosome

Mol Biol Evol. 2005 Feb;22(2):189-92. | View as .pdf.

Hammer M.F., Karafet TM, Park H, Omoto K, Harihara S, Stoneking M, Horai S.
Dual origins of the Japanese: common ground for hunter-gatherer and farmer Y chromosomes.

J Hum Genet. 2005 Nov 18. | Not yet available as .pdf

Hammer M.F., Chamberlain V.F., Kearney V.F., Stover D., Zhang G., Karafet T., Walsh B., Redd A.
Population Structure of Y Chromosome SNP Haplogroups in the United States and Forensic Implications for Constructing Y Chromosome STR Databases

For. Sci. Intl. 2005. | View as .pdf

Karafet TM, Lansing JS, Redd AJ, Reznikova S, Watkins JC, Surata SP, Arthawiguna WA, Mayer L, Bamshad M, Jorde LB, Hammer MF. Balinese Y-chromosome perspective on the peopling of Indonesia: genetic contributions from pre-neolithic hunter-gatherers, Austronesian farmers, and Indian traders.

Hum Biol. 2005 Feb;77(1):93-114. | View as .pdf.

Saunders MA, Slatkin M, Garner C, Hammer MF, Nachman MW.
The span of linkage disequilibrium caused by selection on G6PD in humans.

Genetics. 2005 171:1219-1229. | View as .pdf.

Wood ET, Stover DA, Slatkin M, Nachman MW, Hammer MF.
The beta -globin recombinational hotspot reduces the effects of strong selection around HbC, a recently arisen mutation providing resistance to malaria.

Am J Hum Genet. 2005 Oct;77(4):637-42. 2005 Aug 29. | View as .pdf

Wood ET, Stover DA, Ehret C, Destro-Bisol G, Spedini G, McLeod H, Louie L, Bamshad M, Strassmann BI, Soodyall H, Hammer MF.
Contrasting patterns of Y chromosome and mtDNA variation in Africa: evidence for sex-biased demographic processes.

Eur J Hum Genet. 2005 Jul;13(7):867-76. | View as .pdf

2004

Behar DM, Garrigan D, Kaplan ME, Mobasher Z, Rosengarten D, Karafet TM, Quintana-Murci L, Ostrer H, Skorecki K, Hammer MF.
Contrasting patterns of Y chromosome variation in Ashkenazi Jewish and host non-Jewish European populations.

Hum Genet. 2004 Mar;114(4):354-65. | Not yet available as .pdf

Behar DM, Hammer MF, Garrigan D, Villems R, Bonne-Tamir B, Richards M, Gurwitz D, Rosengarten D, Kaplan M, Della Pergola S, Quintana-Murci L, Skorecki K.
MtDNA evidence for a genetic bottleneck in the early history of the Ashkenazi Jewish population.

Eur J Hum Genet. 2004 May;12(5):355-64. | View as .pdf

Chaix R, Austerlitz F, Khegay T, Jacquesson S, Hammer MF, Heyer E, Quintana-Murci L.
The genetic or mythical ancestry of descent groups: lessons from the Y chromosome.

Am J Hum Genet. 2004 Dec;75(6):1113-6. | View as .pdf

Hammer MF, Garrigan D, Wood E, Wilder JA, Mobasher Z, Bigham A, Krenz JG, Nachman MW. Heterogeneous patterns of variation among multiple human x-linked Loci: the possible role of diversity-reducing selection in non-Africans.

Genetics. 2004 Aug;167(4):1841-53. | View as .pdf

Nachman MW, D'Agostino SL, Tillquist CR, Mobasher Z, Hammer MF.
Nucleotide variation at Msn and Alas2, two genes flanking the centromere of the X chromosome in humans.

Genetics. 2004 May;167(1):423-37. | View as .pdf

Wilder JA, Kingan SB, Mobasher Z, Pilkington MM, Hammer MF.
Global patterns of human mitochondrial DNA and Y-chromosome structure are not influenced by higher migration rates of females versus males.

Nat Genet. 2004 Oct;36(10):1122-5. | View as .pdf

Wilder JA, Mobasher Z, Hammer MF.
Genetic evidence for unequal effective population sizes of human females and males.

Mol Biol Evol. 2004 Nov;21(11):2047-57. | View as .pdf

Wilder JA, Hammer MF.
European ACP1*C allele has recessive deleterious effects on early life viability.

Hum Biol. 2004 Dec;76(6):817-35. | View as .pdf.

Zegura SL, Karafet TM, Zhivotovsky LA, Hammer MF.
High-resolution SNPs and microsatellite haplotypes point to a single, recent entry of Native American Y chromosomes into the Americas.

Mol Biol Evol. 2004 Jan;21(1):164-75. | View as .pdf.

2003

Behar DM, Thomas MG, Skorecki K, Hammer MF, Bulygina E, Rosengarten D, Jones AL, Held K, Moses V, Goldstein D, Bradman N, Weale ME.
Multiple origins of Ashkenazi Levites: Y chromosome evidence for both Near Eastern and European ancestries.

Am J Hum Genet. 2003 Oct;73(4):768-79. 2003 Sep 17. | View as .pdf

Bonne-Tamir B, Korostishevsky M, Redd AJ, Pel-Or Y, Kaplan ME, Hammer MF.
Maternal and paternal lineages of the Samaritan isolate: mutation rates and time to most recent common male ancestor.

Ann Hum Genet. 2003 Mar;67(Pt 2):153-64. | View as .pdf

Jin HJ, Kwak KD, Hammer MF, Nakahori Y, Shinka T, Lee JW, Jin F, Jia X, Tyler-Smith C, Kim W.
Y-chromosomal DNA haplogroups and their implications for the dual origins of the Koreans.

Hum Genet. 2003 Dec;114(1):27-35. | Not yet available as .pdf

Hammer MF, Blackmer F, Garrigan D, Nachman MW, Wilder JA.
Human population structure and its effects on sampling Y chromosome sequence variation

Genetics. 2003 Aug;164(4):1495-509. | View as .pdf

Yi Z, Garrison N, Cohen-Barak O, Karafet TM, King RA, Erickson RP, Hammer MF, Brilliant MH.
A 122.5-kilobase deletion of the P gene underlies the high prevalence of oculocutaneous albinism type 2 in the Navajo population.

Am J Hum Genet. 2003 Jan;72(1):62-72. 2002 Dec 5. | View as .pdf

2002

Karafet TM, Osipova LP, Gubina MA, Posukh OL, Zegura SL, Hammer MF.
High levels of Y-chromosome differentiation among native Siberian populations and the genetic signature of a boreal hunter-gatherer way of life.

Hum Biol. 2002 Dec;74(6):761-89. Review. | View as .pdf

Redd AJ, Agellon AB, Kearney VA, Contreras VA, Karafet T, Park H, de Knijff P, Butler JM, Hammer MF.
Forensic value of 14 novel STRs on the human Y chromosome.

Forensic Sci Int. 2002 Dec 4;130(2-3):97-111. | View as .pdf