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Publications

2018

Key, F. M., Abdul-Aziz, M. A., Mundry, R., Peter, B. M., Sekar, A., D'Amato, M., Dennis, M. Y., Schmidt, J. M., & Andrés, A. M. (2018). Human local adaptation of the TRPM8 cold receptor along a latitudinal cline. PLoS Genetics,14(5).
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Bitarello, B. D., de Filippo, C.,Teixeira, J. C., Schmidt, J. M., Kleinert, P., Meyer, D., & Andrés, A. M. (2018). Signatures of long-term balancing selection in human genomes. Genome Biology and Evolution,10(3), 939-955.
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2017

Prüfer, K., Filippo, C. d., Grote, S., Mafessoni, F., Korlevic, P., Hajdinjak, M., Vernot, B., Skov, L., Hsieh, P., Peyrégne, S., Reher, D., Hopfe, C., Nagel, S., Maricic, T., Fu, Q., Theunert, C., Rogers, R., Skoglund, P., Chintalapati, M., Dannemann, M., Nelson, B. J., Key, F. M., Rudan, P., Kucan, Ž., Gušic, I., Golovanova, L. V., Doronichev, V. B., Patterson, N., Reich, D., Eichler, E. E., Slatkin, M., Schierup, M. H., Andrés, A. M., Kelso, J., Meyer, M., & Pääbo, S. (2017). A high-coverage Neandertal genome from Vindija Cave in Croatia. Science,358(6363), 655-658.
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Reher, D., Klink, B., Deutsch, A., & Voss-Böhme, A. (2017). Cell adhesion heterogeneity reinforces tumour cell dissemination: Novel insights from a mathematical model. Biology Direct,12: 18.
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2016

de Manuel, M., Kuhlwilm, M., Frandsen, P., Sousa, V. C., Desai, T., Prado-Martinez, J., Hernandez-Rodriguez, J., Dupanloup, I., Lao, O., Hallast, P., Schmidt, J. M., Heredia-Genestar, J. M., Benazzo, A., Barbujani, G., Peter, B. M., Kuderna, L. F. K., Casals, F., Angedakin, S., Arandjelovic, M., Boesch, C., Kühl, H. S., Vigilant, L., Langergraber, K., Novembre, J., Gut, M., Gut, I., Navarro, A., Carlsen, F., Andrés, A. M., Siegismund, H. R., Scally, A., Excoffier, L., Tyler-Smith, C., Castellano, S., Xue, Y., Hvilsom, C., & Marques-Bonet, T. (2016). Chimpanzee genomic diversity reveals ancient admixture with bonobos. Science,354(6311), 477-481.
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Lobon, I., Tucci, S., de Manuel, M., Ghirotto, S., Benazzo, A., Prado-Martinez, J., Lorente-Galdos, B., Nam, K., Dabad, M., Hernandez-Rodriguez, J., Comas, D., Navarro, A., Schierup, M. H., Andrés, A. M., Barbujani, G., Hvilsom, C., & Marques-Bonet, T. (2016). Demographic history of the genus Pan inferred from whole mitochondrial genome reconstructions. Genome Biology and Evolution,8(10), 2020-2030.
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de Filippo, C.,Key, F. M., Ghirotto, S., Benazzo, A., Meneu, J. R., Weihmann, A., NISC Comparative Sequence Program, Parra, G., Green, E. D., & Andrés, A. M. (2016). Recent selection changes in human genes under long-term balancing selection. Molecular Biology and Evolution,33(6), 1435-1447.
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Meyer, M., Arsuaga, J.-L., de Filippo, C., Nagel, S., Aximu-Petri, A., Nickel, B., Martínez, I., Gracia, A., Bermúdez de Castro, J. M., Carbonell, E., Viola, B., Kelso, J., Prüfer, K., & Pääbo, S. (2016). Nuclear DNA sequences from the Middle Pleistocene Sima de los Huesos hominins. Nature,531(7595), 504-507.
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Key, F. M., Fu, Q., Romagné, F., Lachmann, M., & Andrés, A. M. (2016). Human adaptation and population differentiation in the light of ancient genomes. Nature Communications,7: 10775.
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Andrés, A. M., Dannemann, M., Teixeira, J. C., & Kelso, J. (2016). Balancing selection and adaptive introgression as sources of advantageous genetic diversity in populations. American Journal of Physical Anthropology,159(S62), 80-81.
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Kuhlwilm, M., Gronau, I., Hubisz, M. J., de Filippo, C., Prado-Martinez, J., Kircher, M., Fu, Q., Burbano, H. A., Lalueza-Fox, C., de la Rasilla, M., Rosas, A., Rudan, P., Brajkovic, D., Kucan, Ž., Gušic, I., Marques-Bonet, T., Andrés, A. M., Viola, B., Pääbo, S., Meyer, M., Siepel, A., & Castellano, S. (2016). Ancient gene flow from early modern humans into Eastern Neanderthals. Nature,530(7591), 429-433.
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Dannemann, M., Andrés, A. M., & Kelso, J. (2016). Introgression of Neandertal- and Denisovan-like haplotypes contributes to adaptive variation in human toll-like receptors. The American Journal of Human Genetics,98(1), 22-33.
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Cagan, A., Theunert, C., Laayouni, H., Santpere, G., Pybus, M., Casals, F., Prüfer, K., Navarro, A., Marques-Bonet, T., Bertranpetit, J., & Andrés, A. M. (2016). Natural selection in the great apes. Molecular Biology and Evolution,33(12), 3268-3283.
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Key, F. M. (2016). Human adaptation in the light of ancient and modern genomes. PhD Thesis, Univ., Leipzig.
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2015

Teixeira, J. C.,de Filippo, C., Weihmann, A., Meneu, J. R., Racimo, F., Dannemann, M., Nickel, B., Fischer, A., Halbwax, M., Andre, C., Atencia, R., Meyer, M., Parra, G., Pääbo, S., & Andrés, A. M. (2015). Long-term balancing selection in LAD1 maintains a missense trans-species polymorphism in humans, chimpanzees and bonobos. Molecular Biology and Evolution,32(5), 1186-1196.
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White, L., Romagné, F., Müller, E., Erlebach, E., Weihmann, A., Parra, G.,Andrés, A. M., & Castellano, S. (2015). Genetic adaptation to levels of dietary selenium in recent human history. Molecular Biology and Evolution,32(6), 1507-1518.
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2014

Andrés, A. M., & Nowick, K. (Eds.). (2014). Genetics of human evolution [Special Issue]. Current Opinion in Genetics & Development,29.
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Andrés, A. M., & Nowick, K. (2014). Editorial overview: Genetics of human evolution: The genetics of human origins. Current Opinion in Genetics & Development,29, v-vii.
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Key, F. M.,Teixeira, J. C.,de Filippo, C., & Andrés, A. M. (2014). Advantageous diversity maintained by balancing selection in humans. Current Opinion in Genetics & Development,29, 45-51.
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Key, F. M., Peter, B., Dennis, M. Y., Huerta-Sanchez, E., Tang, W., Prokunina-Olsson, L., Nielsen, R., & Andrés, A. M. (2014). Selection on a variant associated with improved viral clearance drives local, adaptive pseudogenization of Interferon Lambda 4 (IFNL 4). PLoS Genetics,10(10): e1004681.
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Prüfer, K., Racimo, F., Patterson, N., Jay, F., Sankararaman, S., Sawyer, S., Heinze, A., Renaud, G., Sudmant, P. H., de Filippo, C., Li, H., Mallick, S., Dannemann, M., Fu, Q., Kircher, M., Kuhlwilm, M., Lachmann, M., Meyer, M., Ongyerth, M., Siebauer, M. F., Theunert, C., Tandon, A., Moorjani, P., Pickrell, J., Mullikin, J. C., Vohr, S. H., Green, R. E., Hellmann, I., Johnson, P. L. F., Blanche, H., Cann, H., Kitzman, J. O., Shendure, J., Eichler, E. E., Lein, E. S., Bakken, T. E., Golovanova, L. V., Doronichev, V. B., Shunkov, M. V., Derevianko, A. P., Viola, B., Slatkin, M., Reich, D., Kelso, J., & Pääbo, S. (2014). The complete genome sequence of a Neanderthal from the Altai Mountains. Nature,505(7481), 43-49.
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Castellano, S., Parra, G., Sánchez-Quinto, F. A., Racimo, F., Kuhlwilm, M., Kircher, M., Sawyer, S., Fu, Q., Heinze, A., Nickel, B., Dabney, J., Siebauer, M. F., White, L., Burbano, H. A., Renaud, G., Stenzel, U., Lalueza-Fox, C., de la Rasilla, M., Rosas, A., Rudan, P., Brajkovic, D., Kucan, Ž., Gušic, I., Shunkov, M. V., Derevianko, A. P., Viola, B., Meyer, M., Kelso, J., Andrés, A. M., & Pääbo, S. (2014). Patterns of coding variation in the complete exomes of three Neandertals. Proceedings of the National Academy of Sciences of the United States of America,111(18), 6666-6671.
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Hajdinjak, M., Korlević, P., Gansauge, M.-T., Dabney, J., Slon, V., Glocke, I., Sawyer, S., Nickel, B., Nagel, S., Gerber, T., Hopfe, C., Stenzel, U., Renaud, G., Andrés, A. M., Castellano, S., Kelso, J., Prüfer, K., Meyer, M., & Pääbo, S. (2014).Neandertal genetic diversity. Poster presented at XVII World UISPP Congress, Burgos, Spain.
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2013

Prado-Martinez, J., Sudmant, P. H., Kidd, J. M., Li, H., Kelley, J. L., Lorente-Galdos, B., Veeramah, K. R., Woerner, A. E., O’Connor, T. D., Santpere, G., Cagan, A., Theunert, C., Casals, F., Laayouni, H., Munch, K., Hobolth, A., Halager, A. E., Malig, M., Hernandez-Rodriguez, J., Hernando-Herraez, I., Prüfer, K., Pybus, M., Johnstone, L., Lachmann, M., Alkan, C., Twigg, D., Petit, N., Baker, C., Hormozdiari, F., Fernandez-Callejo, M., Dabad, M., Wilson, M. L., Stevison, L., Camprubí, C., Carvalho, T., Ruiz-Herrera, A., Vives, L., Mele, M., Abello, T., Kondova, I., Bontrop, R. E., Pusey, A., Lankester, F., Kiyang, J. A., Bergl, R. A., Lonsdorf, E., Myers, S., Ventura, M., Gagneux, P., Comas, D., Siegismund, H., Blanc, J., Agueda-Calpena, L., Gut, M., Fulton, L., Tishkoff, S. A., Mullikin, J. C., Wilson, R. K., Gut, I. G., Gonder, M. K., Ryder, O. A., Hahn, B. H., Navarro, A., Akey, J. M., Bertranpetit, J., Reich, D., Mailund, T., Schierup, M. H., Hvilsom, C., Andrés, A. M., Wall, J. D., Bustamante, C. D., Hammer, M. F., Eichler, E. E., & Marques-Bonet, T. (2013). Great ape genetic diversity and population history. Nature,499, 471-475.
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Ferreira, Z., Seixas, S., Andrés, A. M., Kretzschmar, W. W., Mullikin, J. C., Cherukuri, P. F., Cruz, P., Swanson, W. J., Clark, A. G., Green, E. D., & Hurle, B. (2013). Reproduction and immunity-driven natural selection in the human WFDC locus. Molecular Biology and Evolution,30(4), 938-950.
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Ferreira, Z., Hurle, B., Andrés, A. M., Kretzschmar, W. W., Mullikin, J. C., Cherukuri, P. F., Cruz, P., Gonder, M. K., Stone, A. C., Tishkoff, S., Swanson, W. J., NISC Comparative Sequencing Program, Green, E. D., Clark, A. G., & Seixas, S. (2013). Sequence diversity of Pan troglodytes subspecies and the impact of WFDC6 selective constraints in reproductive immunity. Genome Biology and Evolution,5(12), 2512-2523.
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2012

Meyer, M., Kircher, M., Gansauge, M.-T., Li, H., Racimo, F., Mallick, S., Schraiber, J. G., Jay, F., Prüfer, K., Filippo, C. d., Sudmant, P. H., Alkan, C., Fu, Q., Do, R., Rohland, N., Tandon, A., Siebauer, M., Green, R. E., Bryc, K., Briggs, A. W., Stenzel, U., Dabney, J., Shendure, J., Kitzman, J., Hammer, M. F., Shunkov, M. V., Derevianko, A. P., Patterson, N., Andrés, A. M., Eichler, E. E., Slatkin, M., Reich, D., Kelso, J., & Pääbo, S. (2012). A high-coverage genome sequence from an archaic Denisovan individual. Science,338(6104), 222-226.
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Prüfer, K., Munch, K., Hellmann, I., Akagi, K., Miller, J. R., Walenz, B., Koren, S., Sutton, G., Kodira, C., Winer, R., Knight, J. R., Mullikin, J. C., Meader, S. J., Ponting, C. P., Lunter, G., Higashino, S., Hobolth, A., Dutheil, J., Karakoç, E., Alkan, C., Sajjadian, S., Catacchio, C. R., Ventura, M., Marques-Bonet, T., Eichler, E. E., André, C., Atencia, R., Mugisha, L., Junhold, J., Patterson, N., Siebauer, M., Good, J. M., Fischer, A., Ptak, S. E., Lachmann, M., Symer, D. E., Mailund, T., Schierup, M. H., Andrés, A. M., Kelso, J., & Pääbo, S. (2012). The bonobo genome compared with the chimpanzee and human genomes. Nature,486(7404), 527-531.
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2011

Andrés, A. M. (2011). Balancing selection in the human genome. In Encyclopedia of Life Sciences. Chichester [u.a.]: Wiley.
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2010

Andrés, A. M., Dennis, M. Y., Kretzschmar, W. W., Cannons, J. L., Lee-Lin, S.-Q., Hurle, B., NISC Comparative Sequencing Program, Schwartzberg, P. L., Williamson, S. H., Bustamante, C. D., Nielsen, R., Clark, A. G., & Green, E. D. (2010). Balancing selection maintains a form of ERAP2 that undergoes nonsense-mediated decay and affects antigen presentation. PLoS Genetics,6(10): e1001157.
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Selected publications before 2010

Andrés AM, Hubisz MJ, Indap A, Torgerson DG, Degenhardt JD, Boyko AR, Gutenkunst RN, White TJ, Green ED, Bustamante CD, Clark AG, Nielsen R. (2009). Targets of balancing selection in the human genome. Molecular Biology and Evolution, 26:2755-64.
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Castellano S*, Andrés AM*, Bosch E, Bayes M, Guigó R, Clark AG. (2009). Low exchangeability of selenocysteine, the 21st amino acid, in vertebrate proteins. Molecular Biology and Evolution, 26:2031-40.
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* Denotes equal contribution.

Nielsen R, Hubisz MJ, Hellmann I, Torgerson D, Andrés AM, Albrechtsen A, Gutenkunst R, Adams MD, Cargill M, Boyko A, Indap A, Bustamante CD, and Clark AG. (2009). Darwinian and demographic forces affecting human protein coding genes. Genome Research, 19:838-49.
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Andrés AM, Clark AG, Shimmin L, Boerwinkle E, Sing CF and Hixson JE. (2007). Understanding the accuracy of statistical haplotype inference with sequence data of known phase. Genetic Epidemiology, 31:659-71.
PubMed   PDF

Andrés AM, de Hemptinne C and Bertranpetit J. (2007). Heterogenetous rate of protein evolution in serotonin genes. Molecular Biology and Evolution, 24:2707-15.
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Soldevila M, Andrés AM, Helgason A, Ramírez-Soriano A, Marquès-Bonet T, Sigurdadóttir S, Calafell F, Navarro A, Stefánsson K and Bertranpetit J. (2006). The prion protein gene in humans revisited: lessons from a worldwide resequencing study. Genome Research, 16:231-9.
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Andrés AM, Soldevila M, Navarro A, Kidd KK, Oliva B and Bertranpetit J. (2004). Positive selection in MAOA gene is human exclusive: determination of the putative amino acid change selected in the human lineage. Human Genetics 115:377-86.
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Andrés AM, Soldevila M, Lao O, Volpini V, Saitou N, Jacobs HT, Hayasaka I, Calafell F and Bertranpetit J. (2004). Comparative genetics of functional trinucleotide tandem repeats in humans and apes. Journal of Molecular Evolution 59:329-39.
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Clarimón J, Andrés AM, Bertranpetit J and Comas D. (2004). Comparative analysis of Alu insertion sequences in the APP 5’flanking region in humans and other primates. Journal of Molecular Evolution 58:722-731 (2004).
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Soldevila M, Andrés AM, Blancher A, Calafell F, Ordoñez M, Pumarola M, Oliva B, Aramburu J and Bertranpetit J. (2004). Variation of the prion gene in chimpanzees and its implication for prion diseases. Neuroscience Letters 355:157-60.
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Andrés AM, Soldevila M, Saitou N, Volpini V, Calafell F and Bertranpetit J. (2003). Understanding the dynamics of Spinocerebellar Ataxia 8 (SCA8) locus through a comparative genetic approach in humans and apes. Neuroscience Letters 336:143-146.
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Andrés AM, Lao O, Soldevila M, Calafell F and Bertranpetit J. (2003). Dynamics of CAG repeat loci revealed by the analysis of their variability. Human Mutation 21:61-70.
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Martínez-Arias R, Calafell R, Mateu E, Comas D, Andrés A and Bertranpetit J. (2002). Sequence variability of a human pseudogene. Genome Research 11:1071-1085.
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