04.07.2015 - 13:48
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Recent Publications

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Anett Pechstein
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2015

Hughes, D. A., Kircher, M., He, Z., Guo, S., Fairbrother, G. L., Moreno, C. S., Khaitovich, P., & Stoneking, M. (2015). Evaluating intra- and inter-individual variation in the human placental transcriptome. Genome Biology, 16: 54.
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Li, M., Schröder, R., Ni, S., Madea, B., & Stoneking, M. (2015). Extensive tissue-related and allele-related mtDNA heteroplasmy suggests positive selection for somatic mutations. Proceedings of the National Academy of Sciences of the United States of America, 112(8), 2491-2496.
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Macholdt, E., Slatkin, M., Pakendorf, B., & Stoneking, M. (2015). New insights into the history of the C-14010 lactase persistence variant in Eastern and Southern Africa. American Journal of Physical Anthropology, 156(4), 661-664.
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Pugach, I., & Stoneking, M. (2015). Genome-wide insights into the genetic history of human populations. Investigative Genetics, 6: 6.
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Valverde, G., Zhou, H., Lippold, S., de Filippo, C., Tang, K., Herráez, D. L., Li, J., & Stoneking, M. (2015). A novel candidate region for genetic adaptation to high altitude in Andean populations. PLoS One, 10(5): e0125444.
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van Leeuwen, E. M., Karssen, L. C., Deelen, J., Isaacs, A., Medina-Gomez, C., Mbarek, H., Kanterakis, A., Trompet, S., Postmus, I., Verweij, N., van Enckevort, D. J., Huffman, J. E., White, C. C., Feitosa, M. F., Bartz, T. M., Manichaikul, A., Joshi, P. K., Peloso, G. M., Deelen, P., van Dijk, F., Willemsen, G., de Geus, E. J., Milaneschi, Y., Penninx, B. W., Francioli, L. C., Menelaou, A., Pulit, S. L., Rivadeneira, F., Hofman, A., Oostra, B. A., Franco, O. H., Leach, I. M., Beekman, M., de Craen, A. J., Uh, H.-W., Trochet, H., Hocking, L. J., Porteous, D. J., Sattar, N., Packard, C. J., Buckley, B. M., Brody, J. A., Bis, J. C., Rotter, J. I., Mychaleckyj, J. C., Campbell, H., Duan, Q., Lange, L. A., Wilson, J. F., Hayward, C., Polasek, O., Vitart, V., Rudan, I., Wright, A. F., Rich, S. S., Psaty, B. M., Borecki, I. B., Kearney, P. M., Stott, D. J., Cupples, L. A., Jukema, J. W., van der Harst, P., Sijbrands, E. J., Hottenga, J.-J., Uitterlinden, A. G., Swertz, M. A., van Ommen, G.-J.-B., de Bakker, P. I., Slagboom, P. E., Boomsma, D. I., Wijmenga, C., van Duijn, C. M., The Genome of the Netherlands Consortium, Stoneking, M., & Li, M. (2015). Genome of the Netherlands population - specific imputations identify an ​ABCA6 variant associated with cholesterol levels. Nature Communications, 6: 6065.
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2014

Barbieri, C., Güldemann, T., Naumann, C., Gerlach, L., Berthold, F., Nakagawa, H., Mpoloka, S. W., Stoneking, M., & Pakendorf, B. (2014). Unraveling the complex maternal history of Southern African Khoisan populations. American Journal of Physical Anthropology, 153(3), 435-448.
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Barbieri, C., Vicente, M., Oliveira, S., Bostoen, K., Rocha, J., Stoneking, M., & Pakendorf, B. (2014). Migration and interaction in a contact zone: mtDNA variation among Bantu-speakers in southern Africa. PLoS One, 9(6): e9911.
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Deelen, P., Menelaou, A., van Leeuwen, E. M., Kanterakis, A., van Dijk, F., Medina-Gomez, C., Francioli, L. C., Hottenga, J. J., Karssen, L. C., Estrada, K., Kreiner-Møller, E., Rivadeneira, F., van Setten, J., Gutierrez-Achury, J., Westra, H.-J., Franke, L., van Enckevort, D., Dijkstra, M., Byelas, H., van Duijn, C. M., Genome of the Netherlands Consortium, de Bakker, P. I. W., Wijmenga, C., Swertz, M. A., Stoneking, M., & Li, M. (2014). Improved imputation quality of low-frequency and rare variants in European samples using the 'Genome of The Netherlands'. European Journal of Human Genetics, 22(11), 1321-1326.
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Delfin, F. S., Ko, A.-M.-S., Li, M., Gunnarsdóttir, E. D., Tabbada, K. A., Salvador, J. M., Calacal, G. C., Sagum, M. S., Datar, F. A., Padilla, S. G., Ungria, M. C. A. D., & Stoneking, M. (2014). Complete mtDNA genomes of Filipino ethnolinguistic groups: A melting pot of recent and ancient lineages in the Asia-Pacific region. European journal of human genetics, 22(2), 228-237.
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Duggan, A. T., & Stoneking, M. (2014). Recent developments in the genetic history of East Asia and Oceania. Current Opinion in Genetics & Development, 29, 9-14.
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Duggan, A. T., Evans, B., Friedlaender, F. R., Friedlaender, J. S., Koki, G., Merriwether, D. A., Kayser, M., & Stoneking, M. (2014). Maternal history of Oceania from complete mtDNA genomes: Contrasting ancient diversity with recent homogenization due to the Austronesian expansion. The American Journal of Human Genetics, 94(5), 721-733.
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Engelken, J., Carnero-Montoro, E., Pybus, M., Andrews, G. K., Lalueza-Fox, C., Comas, D., Sekler, I., de la Rasilla, M., Rosas, A., Stoneking, M., Valverde, M. A., Vicente, R., & Bosch, E. (2014). Extreme population differences in the human zinc transporter ZIP4 (SLC39A4) are explained by positive selection in Sub-Saharan Africa. PLoS Genetics, 10(2): e1004128.
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Francioli, L. C., Menelaou, A., Pulit, S. L., van Dijk, F., Palamara, P. F., Elbers, C. C., Neerincx, P. B. T., Ye, K., Guryev, V., Kloosterman, W. P., Deelen, P., Abdellaoui, A., van Leeuwen, E. M., van Oven, M., Vermaat, M., Li, M., Laros, J. F. J., Karssen, L. C., Kanterakis, A., Amin, N., Hottenga, J. J., Lameijer, E.-W., Kattenberg, M., Dijkstra, M., Byelas, H., van Setten, J., van Schaik, B. D. C., Bot, J., Nijman, I. J., Renkens, I., Marschall, T., Schönhuth, A., Hehir-Kwa, J. Y., Handsaker, R. E., Polak, P., Sohail, M., Vuzman, D., Hormozdiari, F., van Enckevort, D., Mei, H., Koval, V., Moed, M. H., van der Velde, K. J., Rivadeneira, F., Estrada, K., Medina-Gomez, C., Isaacs, A., McCarroll, S. A., Beekman, M., de Craen, A. J. M., Suchiman, H. E. D., Hofman, A., Oostra, B., Uitterlinden, A. G., Willemsen, G., Study, L. C., Platteel, M., Veldink, J. H., van den Berg, L. H., Pitts, S. J., Potluri, S., Sundar, P., Cox, D. R., Sunyaev, S. R., den Dunnen, J. T., Stoneking, M., de Knijff, P., Kayser, M., Li, Q., Li, Y., Du, Y., Chen, R., Cao, H., Li, N., Cao, S., Wang, J., Bovenberg, J. A., Pe'er, I., Slagboom, P. E., van Duijn, C. M., Boomsma, D. I., van Ommen, G.-J.-B., de Bakker, P. I. W., Swertz, M. A., Wijmenga, C., & Genome of the Netherlands Consortium, The (2014). Whole-genome sequence variation, population structure and demographic history of the Dutch population. Nature Genetics, 46(8), 818-825.
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Giuliani, C., Barbieri, C., Li, M., Bucci, L., Monti, D., Passarino, G., Luiselli, D., Franceschi, C., Stoneking, M., & Garagnani, P. (2014). Transmission from centenarians to their offspring of mtDNA heteroplasmy revealed by ultra-deep sequencing. Aging, 6(6), 454-467. Retrieved from http://www.impactaging.com/papers/v6/n6/full/100661.html.
      

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Guo, J., Tan, J., Yang, Y., Zhou, H., Hu, S., Hashan, A., Bahaxar, N., Xu, S., Weaver, T. D., Jin, L., Stoneking, M., & Tang, K. (2014). Variation and signatures of selection on the human face. Journal of Human Evolution, 75, 143-152.
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Henne, K., Li, J., Stoneking, M., Kessler, O., Schilling, H., Sonanini, A., Conrads, G., & Horz, H.-P. (2014). Global analysis of saliva as a source of bacterial genes for insights into human population structure and migration studies. BMC Evolutionary Biology, 14: 190.
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Ko, A.-M.-S., Chen, C.-Y., Fu, Q., Delfin, F. S., Li, M., Chiu, H.-L., Stoneking, M., & Ko, Y.-C. (2014). Early Austronesians: Into and out of Taiwan. The American Journal of Human Genetics, 94(3), 426-436.
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Li, J., Quinque, D., Horz, H.-P., Li, M., Rzhetskaya, M., Raff, J. A., Hayes, M. G., & Stoneking, M. (2014). Comparative analysis of the human saliva microbiome from different climate zones: Alaska, Germany, and Africa. BMC Microbiology, 14: 316.
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Lippold, S., Xu, H., Ko, A., Li, M., Renaud, G., Butthoff, A., Schröder, R., & Stoneking, M. (2014). Human paternal and maternal demographic histories: Insights from high-resolution Y chromosome and mtDNA sequences. Investigative Genetics, 5: 13.
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Lipson, M., Loh, P.-R., Patterson, N., Moorjani, P., Ko, Y.-C., Stoneking, M., Berger, B., & Reich, D. (2014). Reconstructing Austronesian population history in Island Southeast Asia. Nature Communications, 5: 4689.
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Macholdt, E., Lede, V., Barbieri, C., Mpoloka, S. W., Chen, H., Slatkin, M., Pakendorf, B., & Stoneking, M. (2014). Tracing pastoralist migrations to Southern Africa with lactase persistence alleles. Current Biology, 24(8), 875-879.
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Malaspinas, A.-S., Lao, O., Schroeder, H., Rasmussen, M., Raghavan, M., Moltke, I., Campos, P. F., Sagredo, F. S., Rasmussen, S., Gonçalves, V. F., Albrechtsen, A., Allentoft, M. E., Johnson, P. L., Li, M., Reis, S., Bernardo, D. V., DeGiorgio, M., Duggan, A. T., Bastos, M., Wang, Y., Stenderup, J., Moreno-Mayar, J. V., Brunak, S., Sicheritz-Ponten, T., Hodges, E., Hannon, G. J., Orlando, L., Price, T. D., Jensen, J. D., Nielsen, R., Heinemeier, J., Olsen, J., Rodrigues-Carvalho, C., Lahr, M. M., Neves, W. A., Kayser, M., Higham, T., Stoneking, M., Pena, S. D., & Willerslev, E. (2014). Two ancient human genomes reveal Polynesian ancestry among the indigenous Botocudos of Brazil. Current Biology, 24(21), R1035-R1037.
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Oven, M. v., Brauer, S., Choi, Y., Ensing, J., Schiefenhövel, W., Stoneking, M., & Kayser, M. (2014). Human genetics of the Kula Ring: Y-chromosome and mitochondrial DNA variation in the Massim of Papua New Guinea. European journal of human genetics, 22, 1393-1403.
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Pickrell, J. K., Patterson, N., Loh, P.-R., Lipson, M., Berger, B., Stoneking, M., Pakendorf, B., & Reich, D. (2014). Ancient west Eurasian ancestry in southern and eastern Africa. Proceedings of the National Academy of Sciences of the United States of America, 111(7), 2632 -2637.
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2013

Barbieri, C., Vicente, M., Rocha, J., Mpoloka, S. W., Stoneking, M., & Pakendorf, B. (2013). Ancient substructure in early mtDNA lineages of southern Africa. American Journal of Human Genetics, 92, 285-292.
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Brown, S., Savage, P. E., Ko, A.-M.-S., Stoneking, M., Ko, Y.-C., Loo, J.-H., & Trejaut, J. A. (2013). Correlations in the population structure of music, genes and language. Proceedings of the Royal Society of London. Series B: Biological Sciences, 281(1774): 20132072.
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Duggan, A. T., & Stoneking, M. (2013). A highly unstable recent mutation in human mtDNA. American Journal of Human Genetics, 92(2), 279-284.
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Grossmann, T., Vaish, A., Franz, J., Schroeder, R., Stoneking, M., & Friederici, A. D. (2013). Emotional voice processing: Investigating the role of genetic variation in the serotonin transporter across development. PLoS One, 8(7): e68377.
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Li, J., Nasidze, I., Quinque, D., Li, M., Horz, H.-P., Andre, C., Garriga, R. M., Halbwax, M., Fischer, A., & Stoneking, M. (2013). The saliva microbiome of Pan and Homo. BMC Microbiology, 13: 204.
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Pugach, I., Delfin, F., Gunnarsdóttir, E., Kayser, M., & Stoneking, M. (2013). Genome-wide data substantiate Holocene gene flow from India to Australia. Proceedings of the National Academy of Sciences of the United States of America, 110(5), 1803-1808.
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Stoneking, M. (2013). Mitochondrial genome: Evolution. In Encyclopedia of the Life Sciences. Chichester [u.a.]: Wiley.
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Stoneking, M., & Harvati, K. (2013). Early Old World migrations of Homo sapiens: human biology. In The Encyclopedia of Global Human Migration, P. I. Hoboken, NJ: Wiley-Backwell.
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2012

Ballantyne, K. N., van Oven, M., Ralf, A., Stoneking, M., Mitchell, R. J., van Oorschot, R. A., & Kayser, M. (2012). MtDNA SNP multiplexes for efficient inference of matrilineal genetic ancestry within Oceania. Forensic Science International: Genetics, 6(4), 425-436.
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de Filippo, C., Bostoen, K., Stoneking, M., & Pakendorf, B. (2012). Bringing together linguistic and genetic evidence to test the Bantu expansion. Proceedings of the Royal Society B: Biological Sciences, 279(1741), 3256-3263.
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Delfin, F., Myles, S., Choi, Y., Hughes, D., Illek, R., van Oven, M., Pakendorf, B., Kayser, M., & Stoneking, M. (2012). Bridging Near and Remote Oceania: mtDNA and NRY Variation in the Solomon Islands. Molecular Biology and Evolution, 29(2), 545-564.
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Jinam, T. A., Hong, L.-C., Phipps, M. E., Stoneking, M., Ameen, M., Edo, J., HUGO Pan-Asian SNP Consortium, & Saitou, N. (2012). Evolutionary history of continental South East Asians: "Early Train" hypothesis based on genetic analysis of mitochondrial and autosomal DNA data. Molecular Biology and Evolution, 29(11), 3513-3527.
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Kenny, E. E., Timpson, N. J., Sikora, M., Yee, M.-C., Moreno-Estrada, A., Eng, C., Huntsman, S., Burchard, E. G., Stoneking, M., Bustamante, C. D., & Myles, S. (2012). Melanesian blond hair is caused by an amino acid change in TYRP1. Science, 336(6081), 554-554.
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Li, J., Menard, V., Benish, R. L., Jurevic, R. J., Guillemette, C., Stoneking, M., Zimmerman, P. A., & Mehlotra, R. K. (2012). Worldwide variation in human drug-metabolism enzyme genes CYP2B6 and UGT2B7: implications for HIV/AIDS treatment. Pharmacogenomics, 13(5), 555-570.
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Li, M., & Stoneking, M. (2012). A new approach for detecting low-level mutations in next-generation sequence data. Genome Biology, 13(5): R34.
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Li, M., Schröder, R., Ko, A.-M.-S., & Stoneking, M. (2012). Fidelity of capture-enrichment for mtDNA genome sequencing: influence of NUMTs. Nucleic Acids Research, 40(18): e137.
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Pickrell, J. K., Patterson, N., Berthold, F., Barbieri, C., Gerlach, L., Gueldemann, T., Kure, B., Mpoloka, S. W., Nakagawa, H., Naumann, C., Lipson, M., Loh, P.-R., Lachance, J., Mountain, J., Bustamante, C. D., Berger, B., Tishkoff, S. A., Henn, B. M., Stoneking, M., Reich, D., & Pakendorf, B. (2012). The genetic prehistory of southern Africa. Nature Communications, 3: 1143.
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Quillen, E. E., Bauchet, M., Bigham, A. W., Delgado-Burbano, M. E., Faust, F. X., Klimentidis, Y. C., Mao, X., Stoneking, M., & Shriver, M. D. (2012). OPRM1 and EGFR contribute to skin pigmentation differences between Indigenous Americans and Europeans. Human Genetics, 131(7), 1073-1080.
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Theunert, C., Tang, K., Lachmann, M., Hu, S., & Stoneking, M. (2012). Inferring the history of population size change from genome-wide SNP data. Molecular Biology and Evolution, 29(2), 3653-3667.
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Xu, S., Pugach, I., Stoneking, M., Kayser, M., Jina, L., & The HUGO Pan-Asian SNP Consortium (2012). Genetic dating indicates that the Asian–Papuan admixture through Eastern Indonesia corresponds to the Austronesian expansion. Proceedings of the National Academy of Sciences of the United States of America, 109(12), 4574-4579.
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2011

de Filippo, C., Barbieri, C., Whitten, M., Mpoloka, S. W., Gunnarsdóttir, E. D., Bostoen, K., Nyambe, T., Beyer, K., Schreiber, H., Knijff, P. d., Luiselli, D., Stoneking, M., & Pakendorf, B. (2011). Y-chromosomal variation in sub-saharan Africa: Insights into the history of Niger-Congo groups. Molecular Biology and Evolution, 28(3): msq312v1, pp. 1255-1269.
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Delfin, F., Salvador, J. M., Calacal, G. C., Perdigon, H. B., Tabbada, K. A., Villamor, L. P., Halos, S. C., Gunnarsdóttir, E., Myles, S., Hughes, D. A., Xu, S., Jin, L., Lao, O., Kayser, M., Hurles, M. E., Stoneking, M., & Ungria, M. C. A. d. (2011). The Y-chromosome landscape of the Philippines: extensive heterogeneity and varying genetic affinities of Negrito and non-Negrito groups. European Journal of Human Genetics, 19(2), 224-230.
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Gross, A., Tönjes, A., Kovacs, P., Veeramah, K. R., Ahnert, P., Roshyara, N. R., Gieger, C., Rueckert, I.-M., Loeffler, M., Stoneking, M., Wichmann, H.-E., Novembre, J., Stumvoll, M., & Scholz, M. (2011). Population-genetic comparison of the Sorbian isolate population in Germany with the German KORA population using genome-wide SNP arrays. BMC Genetics, 12: 67.
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Grossmann, T., Johnson, M. H., Vaish, A., Hughes, D. A., Quinque, D., Stoneking, M., & Friederici, A. D. (2011). Genetic and neural dissociation of individual responses to emotional expressions in human infants. Developmental Cognitive Neuroscience, 1(1), 57-66.
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Gunnarsdóttir, E. D., Li, M., Bauchet, M., Finstermeier, K., & Stoneking, M. (2011). High-throughput sequencing of complete human mtDNA genomes from the Philippines. Genome Research, 21(1), 1-11.
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Gunnarsdóttir, E. D., Nandineni, M. R., Li, M., Myles, S., Gil, D., Pakendorf, B., & Stoneking, M. (2011). Larger mitochondrial DNA than Y-chromosome differences between matrilocal and patrilocal groups from Sumatra. Nature Communications, 2: 228.
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Li, J., Zhang, L., Zhou, H., Stoneking, M., & Tang, K. (2011). Global patterns of genetic diversity and signals of natural selection for human ADME genes. Human Molecular Genetics, 20(3), 528-540.
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Myles, S., Lea, R. A., Ohashi, J., Chambers, G. K., Weiss, J. G., Hardouin, E., Engelken, J., Macartney-Coxson, D. P., Eccles, D. A., Naka, I., Kimura, R., Inaoka, T., Matsumura, Y., & Stoneking, M. (2011). Testing the thrifty gene hypothesis: the Gly482Ser variant in PPARGC1A is associated with BMI in Tongans. BMC Medical Genetics, 12(1): 10, pp. 1-7.
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Nasidze, I., & Stoneking, M. (2011). Microbiome diversity in human saliva. In F. J. d. Bruijn (Ed.), Handbook of Molecular Microbial Ecology II: Metagenomics in Different Habitats (pp. 335-339). New York: Wiley.
      
Nasidze, I., Li, J., Schroeder, R., Creasey, J. L., Li, M., & Stoneking, M. (2011). High diversity of the saliva microbiome in Batwa pygmies. PLoS ONE, 6(8): e23352.
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Pugach, I., Matveyev, R., Wollstein, A., Kayser, M., & Stoneking, M. (2011). Dating the age of admixture via wavelet transform analysis of genome-wide data. Genome Biology, 12(2): R19, pp. 1-18.
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Reich, D., Patterson, N., Kircher, M., Delfin, F., Nandineni, M. R., Pugach, I., Ko, A.-M.-S., Ko, Y.-C., Jinam, T. A., Phipps, M. E., Saitou, N., Wollstein, A., Kayser, M., Pääbo, S., & Stoneking, M. (2011). Denisova admixture and the first modern human dispersals into southeast Asia and Oceania. The American Journal of Human Genetics, 89(4), 516-528.
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Schönberg, A., Theunert, C., Li, M., Stoneking, M., & Nasidze, I. (2011). High-throughput sequencing of complete human mtDNA genomes from the Caucasus and West Asia: High diversity and demographic inferences. European Journal of Human Genetics, 19(9), 988-994.
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Stoneking, M., & Krause, J. (2011). Learning about human population history from ancient and modern genomes. Nature Reviews Genetics, 12(9), 603-614.
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2010

Athanasiadis, G., Esteban, E., Gayà-Vidal, M., Dugoujon, J.-M., Moschonas, N., Chaabani, H., Bissar-Tadmouri, N., Harich, N., Stoneking, M., & Moral, P. (2010). Different evolutionary histories of the coagulation factor VII gene in human populations? Annals of Human Genetics, 74(1), 34-45.
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Athanasiadis, G., González-Pérez, E., Esteban, E., Dugoujon, J.-M., Stoneking, M., & Moral, P. (2010). The Mediterranean Sea as a barrier to gene flow: Evidence from variation in and around the F7 and F12 genomic regions. BMC Evolutionary Biology, 10: 84.
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de Filippo, C., Heyn, P., Barham, L., Stoneking, M., & Pakendorf, B. (2010). Genetic perspectives on forager-farmer interaction in the Luangwa Valley of Zambia. American Journal of Physical Anthropology, 141(3), 382-394.
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Li, M., Schönberg, A., Schaefer, M., Schroeder, R., Nasidze, I., & Stoneking, M. (2010). Detecting heteroplasmy from high-throughput sequencing of complete human mitochondrial DNA genomes. The American Journal of Human Genetics, 87(2), 237-249.
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Reich, D., Green, R. E., Kircher, M., Krause, J., Patterson, N., Durand, E. Y., Viola, B., Briggs, A. W., Stenzel, U., Johnson, P. L. F., Maricic, T., Good, J. M., Marques-Bonet, T., Alkan, C., Fu, Q., Mallick, S., Li, H., Meyer, M., Eichler, E. E., Stoneking, M., Richards, M., Talamo, S., Shunkov, M. V., Derevianko, A. P., Hublin, J.-J., Kelso, J., Slatkin, M., & Pääbo, S. (2010). Genetic history of an archaic hominin group from Denisova Cave in Siberia. Nature, 468(7327), 1053-1060.
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Stoneking, M., & Delfin, F. S. (2010). The human genetic history of East Asia: Weaving a complex tapestry. Current Biology, 20(4), R188-R193.
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Wollstein, A., Lao, O., Becker, C., Brauer, S., Trent, R. J., Nürnberg, P., Stoneking, M., & Kayser, M. (2010). Demographic history of Oceania inferred from genome-wide data. Current Biology, 20, 1983-1992.
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2009

Balaresque, P., Parkin, E. J., Roewer, L., Carvalho-Silva, D. R., Mitchell, R. J., Oorschot, R. A. H. v., Henke, J., Stoneking, M., Nasidze, I., Wetton, J., Knijff, P. d., Tyler-Smith, C., & Jobling, M. A. (2009). Genomic complexity of the Y-STR DYS19: inversions, deletions and founder lineages carrying duplications. International Journal of Legal Medicine, 123(1), 15-23.
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Hillmer, A. M., Freudenberg, J., Myles, S., Herms, S., Tang, K., Hughes, D. A., Brockschmidt, F. F., Ruan, Y., Stoneking, M., & Nöthen, M. M. (2009). Recent positive selection of a human androgen receptor/ectodysplasin A2 receptor haplotype and its relationship to male pattern baldness. Human Genetics, 126(2), 223-232.
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Hughes, D. A., Hinney, A., Brumm, H., Wermter, A.-K., Biebermann, H., Hebebrand, J., & Stoneking, M. (2009). Increased constraints on MC4R during primate and human evolution. Human Genetics, 124(6), 633-647.
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Hughes, D. A., Jastroch, M., Stoneking, M., & Klingenspor, M. (2009). Molecular evolution of UCP1 and the evolutionary history of mammalian non-shivering thermogenesis. BMC Evolutionary Biology, 9: 4.
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López Herráez, D., Bauchet, M., Tang, K., Theunert, C., Pugach, I., Li, J., Nandineni, M. R., Gross, A., Scholz, M., & Stoneking, M. (2009). Genetic variation and recent positive selection in worldwide human populations: Evidence from nearly 1 million SNPs. PLoS ONE, 4(11): e7888.
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Mona, S., Grunz, K. E., Brauer, S., Pakendorf, B., Castrì, L., Sudoyo, H., Marzuki, S., Barnes, R. H., Schmidtke, J., Stoneking, M., & Kayser, M. (2009). Genetic admixture history of Eastern Indonesia as revealed by Y-chromosome and mitochondrial DNA analysis. Molecular Biology and Evolution, 26(8), 1865-1877.
DOI          
Moreno-Estrada, A., Tang, K., Sikora, M., Marquès-Bonet, T., Casals, F., Navarro, A., Calafell, F., Bertranpetit, J., Stoneking, M., & Bosch, E. (2009). Interrogating 11 fast-evolving genes for signatures of recent positive selection in worldwide human populations. Molecular Biology and Evolution, 26(10), 2285-2297.
DOI          
Myles, S., Stoneking, M., & Timpson, N. (2009). An assessment of the portability of ancestry informative markers between human populations. BMC Medical Genomics, 2: 45.
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more

Nasidze, I., Li, J., Quinque, D., Tang, K., & Stoneking, M. (2009). Global diversity in the human salivary microbiome. Genome Research, 19(4), 636-643.
DOI          
Nasidze, I., Quinque, D., Li, J., Li, M., Tang, K., & Stoneking, M. (2009). Comparative analysis of human saliva microbiome diversity by barcoded pyrosequencing and cloning approaches. Analytical Biochemistry, 391(1), 64-68.
DOI          
Nasidze, I., Quinque, D., Rahmani, M., Alemohamad, S. A., Asadova, P., Zhukova, O., & Stoneking, M. (2009). MtDNA and Y-chromosome variation in the Talysh of Iran and Azerbaijan. American Journal of Physical Anthropology, 138(1), 82-89.
DOI          
Roewer, L., Willuweit, S., Stoneking, M., & Nasidze, I. (2009). A Y-STR database of Iranian and Azerbaijanian minority populations. Forensic Science International: Genetics, 4(1), e53-e55.
DOI          
Ryan, A. W., Hughes, D. A., Tang, K., Kelleher, D. P., Ryan, T., McManus, R., & Stoneking, M. (2009). Natural selection and the molecular basis of electrophoretic variation at the coagulation F13B locus. European Journal of Human Genetics, 17(2), 219-227.
DOI          
Stoneking, M. (2009). Humans as second orangutans: sense or nonsense? BioEssays, 31(10), 1010-1012.
DOI          

2008

Balaresque, P., Bowden, G. R., Parkin, E. J., Omran, G. A., Heyer, E., Quintana-Murci, L., Roewer, L., Stoneking, M., Nasidze, I., Carvalho-Silva, D. R., Tyler-Smith, C., de Knijff, P., & Jobling, M. A. (2008). Dynamic nature of the proximal AZFc region of the human Y chromosome: Multiple independent deletion and duplication events revealed by microsatellite analysis. Human Mutation, 29(10), 1171-1180.
DOI          
Bryk, J., Hardouin, E., Pugach, I., Hughes, D. A., Strotmann, R., Stoneking, M., & Myles, S. (2008). Positive selection in East Asians for an EDAR allele that enhances NF-kappaB activation. PLoS ONE, 3(5): e2209.
DOI          

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Fechner, A., Quinque, D., Rychkov, S., Morozowa, I., Naumova, O., Schneider, Y., Willuweit, S., Zhukova, O., Roewer, L., Stoneking, M., & Nasidze, I. (2008). Boundaries and clines in the West Eurasian Y-chromosome landscape: Insights from the European part of Russia. American Journal of Physical Anthropology, 137(1), 41-47.
DOI          
Güldemann, T., & Stoneking, M. (2008). A historical appraisal of clicks: A linguistic and genetic population perspective. Annual Review of Anthropology, 37, 93-109.
DOI          
Herráez, D. L., & Stoneking, M. (2008). High fractions of exogenous DNA in human buccal samples reduce the quality of large-scale genotyping. Analytical Biochemistry, 383(2), 329-331.
DOI          
Hughes, D. A., Tang, K., Strotmann, R., Schöneberg, T., Prenen, J., Nilius, B., & Stoneking, M. (2008). Parallel selection on TRPV6 in human populations. PLoS One, 3(3): e1686.
DOI          

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Kayser, M., Choi, Y., Oven, M. v., Mona, S., Brauer, S., Trent, R. J., Suarkia, D., Schiefenhövel, W., & Stoneking, M. (2008). The impact of the Austronesian expansion: Evidence from mtDNA and Y chromosome diversity in the Admiralty Islands of Melanesia. Molecular Biology and Evolution, 25(7), 1362-1374.
DOI          
Kayser, M., Lao, O., & Stoneking, M. (2008). Reply to Hedrick: East Asian and Melanesian ancestry in Polynesians. American Journal of Human Genetics, 83(1), 140-142.
DOI          
Kayser, M., Lao, O., Saar, K., Brauer, S., Wang, X., Nürnberg, P., Trent, R. J., & Stoneking, M. (2008). Genome-wide analysis indicates more Asian than Melanesian ancestry of Polynesians. American Journal of Human Genetics, 82(1), 194-198.
DOI          
Klingenspor, M., Fromme, T., Hughes, D. A., Manzke, L., Polymeropoulos, E., Riemann, T., Trzcionka, M., Hirschberg, V., & Jastroch, M. (2008). An ancient look at UCP1. Biochimica et Biophysica Acta (BBA) - Bioenergetics, 1777(7-8), 637-641.
DOI          
Mehlotra, R. K., Mattera, G., Bockarie, M. J., Maguire, J. D., Baird, J. K., Sharma, Y. D., Alifrangis, M., Dorsey, G., Rosenthal, P. J., Fryauff, D. J., Kazura, J. W., Stoneking, M., & Zimmerman, P. A. (2008). Discordant patterns of genetic variation at two chloroquine resistance loci in worldwide populations of the malaria parasite Plasmodium falciparum. Antimicrobial Agents and Chemotherapy, 52(6), 2212-2222.
DOI          
Myles, S., Davison, D., Barrett, J., Stoneking, M., & Timpson, N. (2008). Worldwide population differentiation at disease-associated SNPs. BMC Medical Genomics, 1: 22.
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Myles, S., Tang, K., Somel, M., Green, R. E., Kelso, J. F., & Stoneking, M. (2008). Identification and analysis of genomic regions with large between-population differentiation in humans. Annals of Human Genetics, 72(1), 99-110.
DOI          
Nasidze, I., Quinque, D., Rahmani, M., Alemohamad, S. A., & Stoneking, M. (2008). Close genetic relationship between Semitic-speaking and Indo-European-speaking groups in Iran. Annals of Human Genetics, 72(2), 241-252.
DOI          
Roewer, L., Willuweit, S., Krüger, C., Nagy, M., Rychkov, S., Morozowa, I., Naumova, O., Schneider, Y., Zhukova, O., Stoneking, M., & Nasidze, I. (2008). Analysis of Y chromosome STR haplotypes in the European part of Russia reveals high diversities but non-significant genetic distances between populations. International Journal of Legal Medicine, 122(3), 219-223.
DOI          
Stoneking, M. (2008). Human origins - the molecular perspective. EMBO Reports, 9(Supplement 1), S46-S50.
DOI          
Stoneking, M. (2008). Mitochondrial genome: Evolution. In Encyclopedia of Life Sciences (ELS). Chichester: Wiley.
DOI          

2007

Cordaux, R., Srikanta, D., Lee, J., Stoneking, M., & Batzer, M. A. (2007). In search of polymorphic alu insertions with restricted geographic distributions. Genomics, 90(1), 154-158.
DOI          
DaRe, J. T., Mehlotra, R. K., Michon, P., Mueller, I., Reeder, J. C., Sharma, Y. D., Stoneking, M., & Zimmerman, P. A. (2007). Microsatellite polymorphism within pfcrt provides evidence of continuing evolution of chloroquine-resistant alleles in Papua New Guinea. Malaria Journal, 6: 34.
DOI          
Kuch, M., Gröcke, D. R., Knyf, M. C., Gilbert, M. T. P., Younghusband, B., Young, T., Marshall, I., Willerslev, E., Stoneking, M., & Poinar, H. N. (2007). A preliminary analysis of the DNA and diet of the extinct Beothuk: A systematic approach to ancient human DNA. American Journal of Physical Anthropology, 132(4), 594-604.
DOI          
Lalueza-Fox, C., Römpler, H., Caramelli, D., Stäubert, C., Catalano, G., Hughes, D. A., Rohland, N., Pilli, E., Longo, L., Condemi, S., de la Rasilla, M., Fortea, J., Rosas, A., Stoneking, M., Schöneberg, T., Bertranpetit, J., & Hofreiter, M. (2007). A melanocortin 1 receptor allele suggests varying pigmentation among Neanderthals. Science, 318(5855), 1453-1455.
DOI          
Myles, S., Hradetzky, E., Engelken, J., Lao, O., Nürnberg, P., Trent, R. J., Wang, X., Kayser, M., & Stoneking, M. (2007). Identification of a candidate genetic variant for the high prevalence of type II diabetes in Polynesians. European Journal of Human Genetics, 15, 584-589.
DOI          
Myles, S., Somel, M., Tang, K., Kelso, J. F., & Stoneking, M. (2007). Identifying genes underlying skin pigmentation differences among human populations. Human Genetics, 120(5), 613-621.
DOI          
Nasidze, I., Quinque, D., Udina, I., Kunizheva, S., & Stoneking, M. (2007). The Gagauz, a linguistic enclave, are not a genetic isolate. Annals of Human Genetics, 71(3), 379-389.
DOI          
Pakendorf, B., Novgorodov, I. N., Osakovskij, V. L., & Stoneking, M. (2007). Mating patterns amongst Siberian reindeer herders: Inferences from mtDNA and Y-chromosomal analyses. American Journal of Physical Anthropology, 133(3), 1013-1027.
DOI          
Roewer, L., Krüger, C., Willuweit, S., Nagy, M., Rodig, H., Kokshunova, L., Rothämel, T., Kravchenko, S. A., Jobling, M. A., Stoneking, M., & Nasidze, I. (2007). Y-chromosomal STR haplotypes in Kalmyk population samples. Forensic Science International, 173(2-3), 204-209.
DOI          
Rootsi, S., Zhivotovsky, L. A., Baldovic, M., Kayser, M., Kutuev, I. A., Khusainova, R., Bermisheva, M. A., Gubina, M., Fedorova, S. A., Ilumäe, A.-M., Khusnutdinova, E., Voevoda, M. I., Osipova, L. P., Stoneking, M., Lin, A. A., Ferak, V., Parik, J., Kivisild, T., Underhill, P. A., & Villems, R. (2007). A counter-clockwise northern route of the Y-chromosome haplogroup N from Southeast Asia towards Europe. European Journal of Human Genetics, 15(2), 204-211.
DOI          
Stoneking, M., & Kayser, M. (2007). Genealogical markers: mtDNA and the Y-chromosome. In Michael P. Weiner, Stacey B. Gabriel, J. Claiborne Stephens (Ed.), Genetic Variation: A Laboratory Manual (pp. 421-436). New York: Cold Spring Harbor Laborarory Press.
      
Stoneking, M., & Nasidze, I. (2007). Reply to Parson: The art of reading sequence electropherograms. Annals of Human Genetics, 71(2), 279-280.
DOI          

2006

Hammer, M. F., Karafet, H., Park, H.-S., Omoto, K., Harihara, S., Stoneking, M., & Horai, S. (2006). Dual origins of the Japanese: common ground for hunter-gatherer and farmer Y chromosomes. Journal of Human Genetics, 51, 47-58.
DOI          
Kayser, M., Brauer, S., Cordaux, R., Casto, A., Lao, O., Zhivotovsky, L. A., Moyse-Faurie, C., Rutledge, R., Schiefenhövel, W., Gil, D., Lin, A. A., Underhill, P. A., Oefner, P. J., Trent, R. J., & Stoneking, M. (2006). Melanesian and Asian origins of Polynesians: mtDNA and Y-chromosome gradients across the Pacific. Molecular Biology and Evolution, 23(11), 2234-2244.
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more

Nasidze, I., & Stoneking, M. (2006). Mother tongue: Concomitant replacement of language and mtDNA in South Caspian populations of Iran. In Cangelosi, A.; Smith, A.; (Ed.), Evolution of Language: Proceedings of the 6th international conference EVOLANG6, Rome, Italy, 12-15 April 2006 (pp. 432-433). New Jersey: World Scientific.
      
Nasidze, I., Quinque, D., Rahmani, M., Alemohamad, S. A., & Stoneking, M. (2006). Concomitant replacement of language and mtDNA in South Caspian populations of Iran. Current Biology, 16(7), 668-673.
DOI          
Pakendorf, B., Novgorodov, I. N., Osakovskij, V. L., Danilova, A. P., Protod´jakonov, A., & Stoneking, M. (2006). Investigating the effects of prehistoric migrations in Siberia: genetic variation and the origins of Yakuts. Human Genetics, 120(3), 334-353.
DOI          
Quinque, D., Kittler, R., Kayser, M., Stoneking, M., & Nasidze, I. (2006). Evaluation of saliva as a source of human DNA for population and association studies. Analytical Biochemistry, 353(2), 272-277.
DOI          
Stoneking, M. (2006). Genetic evidence for our recent African ancestry. In Soodyall, Himla (Ed.), Prehistory of Africa (pp. 24-36). Johannesburg: Ball.
      
Stoneking, M. (2006). Investigating the health of our ancestors: Insights from the evolutionary genetic consequences of prehistoric diseases. In Bromage, Timothy (Ed.), Integrative Approaches to Human Health and Evolution: proceedings.. (pp. 106-114). Amsterdam [u.a.]: Elsevier.
      
Stoneking, M., & Nasidze, I. (2006). The patient is not dead yet: Premature autopsy of an mtDNA data set. Annals Human Genetics, 70(3), 327-331.
DOI          

2005

Hamilton, G., Stoneking, M., & Excoffier, L. (2005). Molecular analysis reveals tighter social regulation of immigration in patrilocal populations than in matrilocal populations. Proceedings of the National Academy of Sciences of the United States of America, 102(21), 7476-7480.
DOI          
Mehlotra, R. K., Mattera, G., Bhatia, K., Reeder, J. C., Stoneking, M., & Zimmerman, P. A. (2005). Insight into the early spread of chloroquine resistant Plasmodium falciparum infections in Papua New Guinea. Journal of Infectious Diseases, 192(12), 2174-2179.
DOI          
Nasidze, I., Quinque, D., Dupanloup, I., Cordaux, R., Kokshunova, L., & Stoneking, M. (2005). Genetic evidence for the Mongolian ancestry of Kalmyks. American Journal of Physical Anthropology, 128(4), 846-854.
DOI          
Nasidze, I., Quinque, D., Ozturk, M., Bendukidze, N., & Stoneking, M. (2005). MtDNA and Y-chromosome variation in Kurdish groups. Annals of Human Genetics, 69(4), 401-412.
DOI          
Oota, H., Pakendorf, B., Weiss, G., von Haeseler, A., Pookajorn, S., Settheetham-Ishida, W., Tiwawech, D., Ishida, T., & Stoneking, M. (2005). Recent origin and cultural reversion of a hunter–gatherer group. PLoS Biology, 3(3): e71.
DOI          

more

Pakendorf, B., & Stoneking, M. (2005). Mitochondrial DNA and human evolution. Annual Review of Genomics and Human Genetics, 6, 165-183.
DOI          
Stoneking, M. (2005). Gene, Geographie und Sprache. In Günter Hauska (Ed.), Gene, Sprachen und ihre Evolution: wie verwandt sind die Menschen - wie verwandt sind ihre Sprachen? (pp. 133-140). Regensburg: Universitätsverlag Regensburg.
      

2004

Cordaux, R., Aunger, R., Bentley, G. R., Nasidze, I., Sirajuddin, S. M., & Stoneking, M. (2004). Independent origins of Indian caste and tribal paternal lineages. Current Biology, 14(3), 231-235.
DOI          
Cordaux, R., Bentley, G. R., Aunger, R., Sirajuddin, S. M., & Stoneking, M. (2004). Y-STR haplotypes from eight south Indian groups based on five loci. Journal of Forensic Sciences, 49(4), 847-848.
DOI          
Cordaux, R., Edwin, D., Vishwanathan, H., & Stoneking, M. (2004). Genetic evidence for the demic diffusion of agriculture to India. Science, 304(5674), 1125-1125.
DOI          
Cordaux, R., Weiss, G., Saha, N., & Stoneking, M. (2004). The northeast Indian passageway: A barrier or corridor for human migrations? Molecular Biology and Evolution, 21(8), 1525-1533.
DOI          
Erler, A., Stoneking, M., & Kayser, M. (2004). Development of Y-chromosomal microsatellite markers for non-human primates. Molecular Ecology, 13(10), 2921-2930.
DOI          
Hughes, D. A., Cordaux, R., & Stoneking, M. (2004). Humans. Current Biology, 14, R367-R369.
DOI          
Kasperaviciute, D., Kucinskas, V., & Stoneking, M. (2004). Y chromosome and mitochondrial DNA variation in Lithuanians. Annals of Human Genetics, 68(5), 438-452.
DOI          
Kayser, M., Kittler, R., Erler, A., Hedman, M., Lee, A. C., Mohyuddin, A., Mehdi, S. Q., Rosser, Z. H., Stoneking, M., Jobling, M. A., Sajantila, A., & Tyler-Smith, C. (2004). A comprehensive survey of human Y-chromosomal microsatellites. American Journal of Human Genetics, 74(6), 1183-1197.
DOI          
Nasidze, I., Ling, E. Y., Quinque, D., Dupanloup, I., Cordaux, R., Rychkov, S., Naumova, O., Zhukova, O., Sarraf-Zadegan, N., Naderi, G. A., Asgary, S., Sardas, S., Farhud, D. D., Sarkisian, T., Asadov, C., Kerimov, A., & Stoneking, M. (2004). Mitochondrial DNA and Y-chromosome variation in the Caucasus. Annals of Human Genetics, 68(3), 205-221.
DOI          
Nasidze, I., Quinque, D., Dupanloup, I., Rychkov, S., Naumova, O., Zhukova, O., & Stoneking, M. (2004). Genetic evidence concerning the origins of South and North Ossetians. Annals of Human Genetics, 68(6), 588-599.
DOI          
Vishwanathan, H., Deepa, E., Cordaux, R., Stoneking, M., Usha Rani, M. V., & Majumder, P. P. (2004). Genetic structure and affinities among tribal populations of southern India: a study of 24 autosomal DNA markers. Annals Human Genetics, 68(2), 128-138.
DOI          

2003

Cordaux, R., & Stoneking, M. (2003). South Asia: the Andamanese and the genetic evidence for an "early" human dispersal out of Africa. American Journal of Human Genetics, 72(6), 1586-1590.
DOI          
Cordaux, R., Saha, N., Bentley, G. R., Aunger, A., Sirajuddin, S. M., & Stoneking, M. (2003). Mitochondrial DNA analysis reveals diverse histories of tribal populations of India. European Journal of Human Genetics, 11(3), 253-264.
DOI          
Kayser, M., Brauer, S., & Stoneking, M. (2003). A genome scan to detect candidate regions influenced by local natural selection in human populations. Molecular Biology and Evolution, 20(6), 893-900.
DOI          
Kayser, M., Brauer, S., Schädlich, H., Prinz, M., Batzer, M. A., Zimmerman, P. A., Boatin, B. A., & Stoneking, M. (2003). Y chromosome STR haplotypes and the genetic structure of U.S. populations of African, European, and Hispanic ancestry. Genome Research, 13, 624-634.
DOI          
Kayser, M., Brauer, S., Weiss, G., Schiefenhövel, W., Underhill, P. A., Shen, P. D., Oefner, P. J., Tommaseo-Ponzetta, M., & Stoneking, M. (2003). Reduced Y-chromosome, but not mitochondrial DNA, diversity in human populations from West New Guinea. American Journal of Human Genetics, 72(2), 281-302.
DOI          
Kittler, R., Erler, A., Brauer, S., Stoneking, M., & Kayser, M. (2003). Apparent intra-chromosomal exchange on the human Y chromosome explained by population history. European Journal of Human Genetics, 11, 304-314.
DOI          
Kittler, R., Kayser, M., & Stoneking, M. (2003). Molecular evolution of Pediculus humanus and the origin of clothing. Current Biology, 13(16), 1414-1417.
DOI          
Nasidze, I., Sarkisian, T., Kerimov, A., & Stoneking, M. (2003). Testing hypotheses of language replacement in the Caucasus: Evidence from the Y-chromosome. Human Genetics, 112(3), 255-261.
DOI          
Nasidze, I., Schädlich, H., & Stoneking, M. (2003). Haplotypes from the Caucasus, Turkey and Iran for nine Y-STR loci. Forensic Science International, 137(1), 85-93.
DOI          
Pakendorf, B., Wiebe, V., Tarskaia, L. A., Spitsyn, V. A., Soodyall, H., Rodewald, A., & Stoneking, M. (2003). Mitochondrial DNA evidence for admixed origins of central Siberian populations. American Journal of Physical Anthropology, 120(3), 211-224.
DOI          
Stoneking, M. (2003). Mitochondrial genome: Evolution. In David N. Cooper (Ed.), Nature encyclopedia of the human genome: vol. 3 (GEN - MIT) (pp. 1019-1023). London [et al]: Nature Publishing Group.
      
Stoneking, M. (2003). Widespread prehistoric human cannibalism: Easier to swallow? Trends in Ecology & Evolution, 18(10), 489-490.
DOI          

2002

Kayser, M., Brauer, S., Willuweit, S., Schädlich, H., Batzer, M. A., Zawacki, J., Prinz, M., Roewer, L., & Stoneking, M. (2002). Online Y-chromosomal short tandem repeat haplotype reference database (YHRD) for US populations. Journal of Forensic Sciences, 47(3), 513-519.
DOI          
Kittler, R., Stoneking, M., & Kayser, M. (2002). A whole genome amplification method to generate long fragments from low quantities of genomic DNA. Analytical Biochemistry, 300(2), 237-244.
DOI          
Nasidze, I., & Stoneking, M. (2002). Genetic variation among human populations from the Caucasus. In Shumny, V. K.; Kolchanov, N. A.; Fedotov, A. M. (Ed.), The First Workshop on Information Techologies Application to Problems of Biodiversity and Dynamics (pp. 272-278). Novosibirsk, Russia: Russian Academy od Sciences.
      
Oota, H., Kitano, T., Jin, F., Yuasa, I., Wang, L., Ueda, S., Saitou, N., & Stoneking, M. (2002). Extreme mtDNA homogeneity in continental Asian populations. American Journal of Physical Anthropology, 118(2), 146-153.
DOI          
Pakendorf, B., Morar, B., Tarskaia, L. A., Kayser, M., Soodyall, H., Rodewald, A., & Stoneking, M. (2002). Y-chromosomal evidence for a strong reduction in male population size of Yakuts. Human Genetics, 110(2), 198-200.
DOI          
Romualdi, C., Balding, D., Nasidze, I., Risch, G. M., Robichaux, M., Sherry, S. T., Stoneking, M., Batzer, M. A., & Barbujani, G. (2002). Patterns of human diversity, within and among continents, inferred from biallelic DNA polymorphisms. Genome Research, 12(4), 602-612.
DOI          

2001

Begovich, A. B., Moonsamy, P. V., Mack, S. J., Barcellos, L. F., Steiner, L. L., Grams, S., Suraj-Baker, V., Hollenbach, J., Trachtenberg, E., Louie, L., Zimmerman, P. A., Hill, A. V. S., Stoneking, M., Sasazuki, T., Konenkov, V. I., Sartakova, M. L., Titanji, V. P. K., Rickards, O., & Klitz, W. (2001). Genetic variability and linkage disequilibrium within the DP region: Analysis of 15 different populations. Tissue Antigens, 57(5), 424-439.
DOI          
Donnelly, P., Foley, R., Stoneking, M., Deininger, P. L., & Batzer, M. A. (2001). Alu insertion polymorphisms in humans: A review. In Genes, Fossils and Behaviour (pp. 111-121). Amsterdam: IOS Press.
      
Justice, C. M., Den, Z., Nguyen, S. V., Stoneking, M., Deininger, P. L., Batzer, M. A., & Keats, B. J. B. (2001). Phylogenetic analysis of the Friedreich ataxia GAA trinucleotide repeat. Journal of Molecular Evolution, 52(3), 232-238.
DOI          
Kayser, M., Brauer, S., Weiss, G., Schiefenhövel, W., Underhill, P. A., & Stoneking, M. (2001). Independent histories of human Y chromosomes from Melanesia and Australia. American Journal of Human Genetics, 68(1), 173-190.
DOI          
Melton, T., Clifford, S., Kayser, M., Nasidze, I., Batzer, M. A., & Stoneking, M. (2001). Diversity and heterogeneity in mitochondrial DNA of North American populations. Journal of Forensic Sciences, 46(1), 46-52.
DOI          
Nasidze, I., & Stoneking, M. (2001). Mitochondrial DNA variation and language replacements in the Caucasus. Proceedings of the Royal Society of London B, 268(1472), 1197-1206.
DOI          
Nasidze, I., Risch, G. M., Robichaux, M., Sherry, S. T., Batzer, M. A., & Stoneking, M. (2001). Alu insertion polymorphisms and the genetic structure of human populations from the Caucasus. European Journal of Human Genetics, 9, 267-272.
DOI          
Oota, H., Settheetham-Ishida, W., Tiwawech, D., Ishida, T., & Stoneking, M. (2001). Human mtDNA and Y-chromosome variation is correlated with matrilocal vs. patrilocal residence. Nature Genetics, 29, 20-21.
DOI          
Stone, A. C., Starrs, J. E., & Stoneking, M. (2001). Mitochondrial DNA analysis of the presumptive remains of Jesse James. Journal of Forensic Sciences, 46(1), 173-176.
DOI          
Stoneking, M. (2001). Single nucleotide polymorphisms: From the evolutionary past.. Nature, 409, 821-822.
DOI          
Tishkoff, S. A., Varkonyi, R., Cahinhinan, N., Abbes, S., Argyropoulos, G., Destro-Bisol, G., Drousiotou, A., Dangerfield, B., Lefranc, G., Loiselet, J., Piro, A., Stoneking, M., Tagarelli, A., Tagarelli, G., Touma, E. H., Williams, S. M., & Clark, A. G. (2001). Haplotype diversity and linkage disequilibrium at human G6PD recent origin of alleles that confer malarial resistance. Science, 293(5529), 455-462.
DOI          

2000

Begovich, A. B., Klitz, W., Steiner, L. L., Grams, S., Suraj-Baker, V., Hollenbach, J., Trachtenberg, E., Louie, L., Zimmerman, P. A., Hill, A. V. S., Stoneking, M., Sasazuki, T., Rickards, O., Titanji, V. P. K., Konenkov, V. I., & Sartakova, M. L. (2000). HLA-DQ haplotypes in 15 different populations. In M. Kasahara (Ed.), The Major Histocompatibility Complex: Evolution, Structure and Function (pp. 412-426). Tokyo: Springer.
      
Clark, V. J., Sivendren, S., Saha, N., Bentley, G. R., Aunger, R., Sirajuddin, S. M., & Stoneking, M. (2000). The 9-bp deletion between the mitochondrial lysine tRNA and COII genes in tribal populations of India. Human Biology, 72(2), 273-285.
      
Comas, D., Calafell, F., Benchemsi, N., Helal, A., Lefranc, G., Stoneking, M., Batzer, M. A., Bertranpetit, J., & Sajantila, A. (2000). Alu insertion polymorphisms in Northwest Africa and the Iberian Peninsula: Evidence for a strong genetic boundary through the Gibraltar Straits. Human Genetics, 107(4), 312-319.
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Di Benedetto, G., Nasidze, I., Stenico, M., Nigro, L., Krings, M., Lanzinger, M., Vigilant, L., Stoneking, M., Pääbo, S., & Barbujani, G. (2000). Mitochondrial DNA sequences in prehistoric human remains from the Alps. European Journal of Human Genetics, 8(9), 669-677.
      

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Kayser, M., Roewer, L., Hedman, M., Henke, L., Henke, J., Brauer, S., Kruger, C., Krawczak, M., Nagy, M., Dobosz, T., Szibor, R., de Knijff, P., Stoneking, M., & Sajantila, A. (2000). Characteristics and frequency of germline mutations at microsatellite loci from the human Y chromosome revealed by direct observation in father/son pairs. American Journal of Human Genetics, 66(5), 1580-1588.
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Kumar, S., Hedrick, P. W., Dowling, T., & Stoneking, M. (2000). Questioning evidence for recombination in human mitochondrial DNA. Science, 288(5473), 1931.
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Kumar, S., Nasidze, I., Walimbe, S. R., & Stoneking, M. (2000). Brief communication: Discouraging prospects for ancient DNA from India. American Journal of Physical Anthropology, 113(1), 129-133.
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Mack, S. J., Bugawan, T. L., Moonsamy, P. V., Erlich, J. A., Trachtenberg, E., Paik, Y. K., Begovich, A. B., Saha, N., Beck, H. P., Stoneking, M., & Erlich, H. A. (2000). Evolution of Pacific/Asian populations inferred from HLA class II allele frequency distributions. Tissue Antigens, 55(5), 383-400.
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Sheen, F., Sherry, S. T., Risch, G. M., Robichaux, M., Nasidze, I., Stoneking, M., Batzer, M. A., & Swergold, G. D. (2000). Reading between the LINEs: Human genomic variation induced by LINE-1 retrotransposition. Genome Research, 10(10), 1496-1508.
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Stoneking, M. (2000). Hypervariable sites in the mtDNA control region are mutational hotspots. American Journal of Human Genetics, 67(4), 1029-1032.
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Tishkoff, S. A., Pakstis, A. J., Stoneking, M., Kidd, J. R., Destro-Bisol, G., Sajantila, A., Deinard, A. S., Sirugo, G., Jenkins, T., Kidd, K. K., & Clark, A. G. (2000). Short tandem-repeat polymorphism/Alu haplotype variation at the PLAT locus: Implications for modern human origins. American Journal of Human Genetics, 67(4), 901-925.
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