Recent Department Publications
Last update: July 10th, 2025
In press
Ju, X.-C., Lee, S.-Y., Ågren, R., Machado, L., Xing, J., Azama, C., Roy, M., Endo, T., Huttner, W., Siepel, A., Fukunaga, I., Zeberg, H., & Pääbo, S. (in press). The activity and expression of adenylosuccinate lyase was reduced during modern human evolution, affecting brain and behavior. Proceedings of the National Academy of Sciences of the United States of America. |
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Macak, M., Lee, S.-Y.-., Nyman, T., Ampah-Korsah, H., Strandback, E., Pääbo, S., & Zeberg, H. (in press). Muscle AMP deaminase activity was lower in Neandertals than in modern humans. Nature Communications. |
2025
Di Matteo, F., Bonrath, R., Pravata, V., Schmidt, H., Ayo Martin, A. C., Di Giaimo, R., Menegaz, D., Riesenberg, S., de Vrij, F. M. S., Maccarrone, G., Holzapfel, M., Straub, T., Kushner, S. A., Robertson, S. P., Eder, M., & Cappello, S. (2025). Neuronal hyperactivity in neurons derived from individuals with gray matter heterotopia. Nature Communications, 16: 1737. |
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Dinnis, R., Boulton, J., Chandler, B., Davies, J., French, J. C., Higham, T., Jáuregui, L., Lewis, M., Meyer, M., Schreve, D., Stringer, C., & Proctor, C. (2025). A Middle and Late Devensian sequence from the northern part of Kents Cavern (Devon, UK) (advance online). Journal of Quaternary Science. |
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Fu, Q., Cao, P., Dai, Q., Bennett, E. A., Feng, X., Yang, M. A., Ping, W., Pääbo, S., & Ji, Q. (2025). Denisovan mitochondrial DNA from dental calculus of the >146,000-year-old Harbin cranium (advance online). Cell, 188. |
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Gjermeni, E., Fiebiger, R., Bundalian, L., Garten, A., Schöneberg, T., Le Duc, D., & Blüher, M. (2025). The impact of dietary interventions on cardiometabolic health. Cardiovascular Diabetology, 24: 234. |
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Jacobs, Z., Zavala, E. I., Li, B., O’Gorman, K., Shunkov, M. V., Kozlikin, M. B., Derevianko, A. P., Uliyanov, V. A., Goldberg, P., Agadjanian, A. K., Vasiliev, S. K., Brink, F., Peyrégne, S., Slon, V., Pääbo, S., Kelso, J., Meyer, M., & Roberts, R. G. (2025). Pleistocene chronology and history of hominins and fauna at Denisova Cave. Nature Communications, 16: 4738. |
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Körner, M. B., Velluva, A., Bundalian, L., Krohn, K., Schön, K., Schumann, I., Kromp, J., Thum, A. S., Garten, A., Hentschel, J., Abou Jamra, R., Mrestani, A., Scholz, N., Langenhan, T., & Le Duc, D. (2025). Drosophila WDFY3/Bchsoverexpression impairs neural function. Journal of Neurogenetics, 39(1), 23-38. |
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Krettek, K.-L., Casas-Vargas, A., Mas-Sandoval, A., Arias Alvis, L., Reiter, E., Madero, J. M., Urban, M., Vargas, J. C. N., Usaquén, W., Cuenca, J. V. R., & Posth, C. (2025). A 6000-year-long genomic transect from the Bogotá Altiplano reveals multiple genetic shifts in the demographic history of Colombia. Science Advances, 11(22): eads6284. |
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Kutanan, W., Woravatin, W., Srikummool, M., Suwannapoom, C., Hübner, A., Kampuansai, J., Khaokiew, C., Schaschl, H., Översti, S., La, D. D., Arias, L., & Stoneking, M. (2025). Maternal genetic origin of Chao Lay coastal maritime populations from Thailand. BMC Biology, 23(1): 146. |
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Lammi, V., Nakanishi, T., Jones, S. E., Andrews, S. J., Karjalainen, J., Cortés, B., O’Brien, H. E., Ochoa-Guzman, A., Fulton-Howard, B. E., Broberg, M., Haapaniemi, H. H., Kanai, M., Pirinen, M., Schmidt, A., Mitchell, R. E., Mousas, A., Mangino, M., Huerta-Chagoya, A., Sinnott-Armstrong, N., Cirulli, E. T., Vaudel, M., Kwong, A. S. F., Maiti, A. K., Marttila, M. M., Posner, D. C., Rodriguez, A. A., Batini, C., Minnai, F., Dearman, A. R., Warmerdam, C. A. R., Sequeros, C. B., Winkler, T. W., Jordan, D. M., Rešcenko, R., Miano, L., Lane, J. M., Chung, R. K., Guillen-Guio, B., Leavy, O. C., Carvajal-Silva, L., Aguilar-Valdés, K., Frangione, E., Guare, L., Vergasova, E., Marouli, E., Striano, P., Zainulabid, U. A., Kumar, A., Ahmad, H. F., Edahiro, R., Azekawa, S., Niemi, M. E. K., St-Cyr, J., Adra, D., Durand, M., Bujold, D., Bourque, G., Boisclair, A., Bertrand, M., Auld, D., Laurent, L., Yanishevsky, S., Lathrop, G. M., Shi, F., Rousseau, S., Ragoussis, J., Perley, D., Mooser, V., Morrison, D. R., Balla, D., Heggemann, J., Schultz, S., Behzad, P., Nöthen, M. M., Miller, A., Pensel, M. C., Maj, C., Cho, K., Cai, T., Iyengar, S. K., Aguilar Salinas, C. A., Lee, S. H. T., Moreno-Macias, H., Pajukanta, P., Duran-Gomez, M., Trogstad, L., Rader, D. J., Ritchie, M. D., Verma, A., Kripke, C. M., Papiol, S., Wiltfang, J., Schneider, J., Schulze, T. G., Winter, C., Wallin, E., Frithiof, R., Senner, F., Spinner, C. D., Protzer, U., Cordioli, M., Mueller, N. S., Dinkel, A., Kalman, J. L., Maricic, T., Adorjan, K., Lipcsey, M., Fricke, L., Larsson, I.-M., Heilbronner, U., Budde, M., Erber, J., Harvey, N. R., Forgetta, V., Hignell, B., Espinosa-Parrilla, Y., Saez Hidalgo, J. M., Nova-Lamperti, E., Gutiérrez-Richards, S., Donoso, G., Cerpa, L. C., Echeverria, C. A., Cabrera, C., Bocchieri, P., Fuentes-Guajardo, M., Muñoz, C. A., Oróstica, K. Y., Figueroa, A., Guajardo, L. G., Signore, I. A., Monardes-Ramírez, V. A., Tobar-Calfucoy, E. A., Quiñones, L. A., Yáñez, C. E., Zapata-Contreras, D., Zuñiga-Pacheco, P., Quiroga, R., Martínez, M. F., Alarcon, T. A., Silva, A. X., Selman, C. S., Sanhueza, S., Retamales-Ortega, R., Arévalo, T. V., Lamoza, E., Valenzuela-Jorquera, H., Donaire, M. S., Sarvadhavabhatla, S., Ostrowski, S. R., Brunak, S., Westergaard, D., Feenstra, B., Mortensen, A. S. B., Guyatt, A. L., de Cid, R., Iraola-Guzmán, S., Moncunill, G., Blasco, A., Garcia-Aymerich, J., Blay, N., Dobaño, C., Carreras, A., Farré, X., Kogevinas, M., Castaño-Vinyals, G., Furini, S., Fallerini, C., Zguro, K., Baldassarri, M., Colombo, F., Hannah, T., Ilinskaya, A., Trofimov, M., Shaheen, L., Plotnikov, N., Kim, A., Kharitonov, D., Ilinsky, V., Kamelin, A., Tanudjaja, F., Sandoval, E., Washington, N. L., White, S., Neveux, I., Dabe, S., Bolze, A., Schiabor Barrett, K. M., Christaki, E., Milionis, H., Tzoulaki, I., Liontos, A., Evangelou, E., Ntzani, E., Aliannejad, R., Zarei, V., Soltani, N., Sharififard, B., Tadi, H. A., Amirsavadkouhi, A., NamKoong, H., Thompson, R. C., Charney, A. W., Sloofman, L. G., Simons, N. W., Vishnyakova, O., Xinyi, X., Taher, J., Elliott, L. T., Rovite, V., Raitis, P., Briviba, M., Klovinš, J., Saxena, R., Burns, A. C., Cherry, J. M., Maher, M., Kukkonen, A., Tettamanti, M., Ronzoni, L., Prati, D., Peyvandi, F., Carpani, R., Muscatello, A., Margarita, S., Malvestiti, F., Lamorte, G., Mantero, M., Franke, A., Ellinghaus, D., Iannotti, N., Montano, N., Nobili, A., Degenhardt, F., Bandera, A., Blandini, F., Blasi, F. B. A., Karlsen, T. H., Luoh, S.-W., Erikstrup, C., Pedersen, O. B. V., Lerner-Ellis, J., Colombo, A., Grzymski, J. J., Ishii, M., Okada, Y., Beckmann, N. D., Kumari, M., Wagner, R., Heid, I. M., John, C., Short, P. J., Magnus, P., Ansone, L., Valenti, L. V. C., Lee, S. A., Wain, L. V., Verdugo, R. A., Banasik, K., Geller, F., Franke, L. H., Rakitko, A., Duncan, E. L., Renieri, A., Tsilidis, K. K., de Cid, R., Niavarani, A., Abner, E., Tusié-Luna, T., Verma, S. S., Smith, G. D., Timpson, N. J., Madduri, R. K., Cho, K., Daly, M. J., Ganna, A., Schulte, E. C., Richards, J. B., Ludwig, K. U., Marks-Hultström, M., Zeberg, H., & Ollila, H. M. (2025). Genome-wide association study of long COVID (advance online). Nature Genetics. |
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Ma, X., Lu, Y., Stoneking, M., & Xu, S. (2025). Neanderthal adaptive introgression shaped LCT enhancer region diversity without linking to lactase persistence in East Asian populations. Proceedings of the National Academy of Sciences of the United States of America, 122(11): e2404393122. |
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Marks-Hultström, M., Marks, A. M., Butler-Laporte, G., Yoshiji, S., Lu, T., Morrison, D. R., Nakanishi, T., Chen, Y., Forgetta, V., Farjoun, Y., Frithiof, R., Lipcsey, M., Zeberg, H., & Richards, J. B. (2025). A genetic variant associated with aquaporin 3 expression is correlated to in-hospital death in COVID-19 patients with extracellular hyperosmolality. Physiological Genomics, 57, 385-390. |
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Meyer, J., Teixeira, A. M., Richter, S., Larner, D. P., Syed, A., Klöting, N., Matz-Soja, M., Gaul, S., Barnikol-Oettler, A., Kiess, W., Le Duc, D., Penke, M., & Garten, A. (2025). Sex differences in diet-induced MASLD – are female mice naturally protected? Frontiers in Endocrinology, 16: 1567573. |
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Riesenberg, S., Kanis, P., Karlic, R., & Maricic, T. (2025). Robust prediction of synthetic gRNA activity and cryptic DNA repair by disentangling cellular CRISPR cleavage outcomes. Nature Communications, 16: 4717. |
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Safrastyan, A., & Wollny, D. (2025). Detection of reproducible liver cancer specific ligand-receptor signaling in blood. Frontiers in Bioinformatics, 4: 1332782. |
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Salem, N., Loosdrecht, M. S. v. d., Sümer, A. P., Vai, S., Hübner, A., Peter, B., Bianco, R. A., Lari, M., Modi, A., Al-Faloos, M. F. M., Turjman, M., Bouzouggar, A., Tafuri, M. A., Manzi, G., Rotunno, R., Prüfer, K., Ringbauer, H., Caramelli, D., Lernia, S. d., & Krause, J. (2025). Ancient DNA from the Green Sahara reveals ancestral North African lineage. Nature, 641(8061), 144-150. Retrieved from https://doi.org/10.1038/s41586-025-08793-7. |
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Schreiber, L., Ribeiro, S., Jackson, R., Kvorning, A. B., Nota, K., O’Regan, M., Pearce, C., Seersholm, F., Seidenkrantz, M.-S., Zimmermann, H. H., & Lorenzen, E. D. (2025). Holocene shifts in marine mammal distributions around Northern Greenland revealed by sedimentary ancient DNA. Nature Communications, 16: 4543. |
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Shao, Q., Heras, C. d. l., Prada, A., Fatás, P., Díaz-González, L. M., Ordás, D., Sánchez-Moral, M. E., Grün, R., Garcês, S., Gomes, H., Lattao, V., Nash, G. H., Bossoms Mesa, A., Rosina, P., García Arranz, J. J., Fernández-Sánchez, D., Mira, H. A., von Petzinger, G., & Collado Giraldo, H. (2025). Art in red: New dates for paintings in the Cave of Altamira, Santillana del Mar, Spain. Journal of Archaeological Science, 179: 106235. |
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Sümer, A. P. *., Rougier, H., Villalba-Mouco, V., Huang, Y., Iasi, L. N., Essel, E., Bossoms Mesa, A., Furtwaengler, A., Peyrégne, S., de Filippo, C., Rohrlach, A. B., Pierini, F., Mafessoni, F., Fewlass, H., Zavala, E. I., Mylopotamitaki, D., Bianco, R. A., Schmidt, A., Zorn, J., Nickel, B., Patova, A., Posth, C., Smith, G. M., Ruebens, K., Sinet-Mathiot, V., Stoessel, A., Dietl, H., Orschiedt, J., Kelso, J., Zeberg, H., Bos, K. I., Welker, F., Weiss, M., McPherron, S., Schüler, T., Hublin, J.-J., Velemínský, P., Brůžek, J., Peter, B. M., Meyer, M., Meller, H., Ringbauer, H., Hajdinjak, M., Prüfer, K. *., & Krause, J. *. (2025). Earliest modern human genomes constrain timing of Neanderthal admixture. Nature, 638(8051), 711-717. |
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Swiel, Y., Kelso, J., & Peyrégne, S. (2025). Resolving the source of branch length variation in the Y chromosome phylogeny. Genome Biology, 26(1): 4. |
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Talamo, S., Casaccia, N., Richards, M. P., Wacker, L., Tassoni, L., Nadachowski, A., Kraszewska, A., Kowal, M., Skłucki, J., Barrington, C., Kelly, M., Tait, F., Williams, M., Figus, C., Vazzana, A., Di Bernardo, G., Romandini, M., Di Domenico, G., Benazzi, S., Malegori, C., Sciutto, G., Oliveri, P., Hublin, J.-J., Hajdinjak, M., Skoglund, P., Picin, A., & Valde‑Nowak, P. (2025). Boomerang and bones: Refining the chronology of the Early Upper Paleolithic at Obłazowa Cave, Poland. PLoS One, 20(6): e0324911. |
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Yoshiji, S., Lu, T., Butler-Laporte, G., Carrasco-Zanini-Sanchez, J., Su, C.-Y., Chen, Y., Liang, K., Willett, J. D. S., Wang, S., Adra, D., Ilboudo, Y., Sasako, T., Koyama, S., Nakao, T., Forgetta, V., Farjoun, Y., Zeberg, H., Zhou, S., Marks-Hultström, M., Machiela, M. J., Kaalia, R., Dashti, H., Claussnitzer, M., Flannick, J., Wareham, N. J., Mooser, V., Timpson, N. J., Langenberg, C., & Richards, J. B. (2025). Integrative proteogenomic analysis identifies COL6A3-derived endotrophin as a mediator of the effect of obesity on coronary artery disease. Nature Genetics, 57(2), 345-357. |
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Zhang, X., Chen, Y., Liang, J., Yang, Y., Chen, H., Chen, Z., Li, M., Chen, S., Chen, T., He, H., Liu, Y., Liu, Z., Han, L., Wu, D., Zou, Z., Qu, Y., Li, M., Stoneking, M., Fu, Q., Xu, S., Zeng, Y.-X., Ma, L., Liu, J., Xu, M., & Zhai, W. (2025). Out-of-Africa migration and clonal expansion of a recombinant Epstein-Barr virus drives frequent nasopharyngeal carcinoma in southern China. National Science Review, 12(4): nwae438. |
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Zhang, Y., Wang, J., Yi, C., Su, Y., Yin, Z., Zhang, S., Jin, L., Stoneking, M., Yang, J., Wang, K., Huang, H., Li, J., & Fan, S. (2025). An ancient regulatory variant of ACSF3 influences the coevolution of increased human height and basal metabolic rate via metabolic homeostasis (advance online). Cell Genomics, 5: 100855. |
Open Access2024
Atağ, G., Waldman, S., Carmi, S., & Somel, M. (2024). An explanation for the sister repulsion phenomenon in Patterson's f-statistics. Genetics, 228(3): iyae144. |
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Barnett, S. N., Cujba, A.-M., Yang, L., Maceiras, A. R., Li, S., Kedlian, V. R., Pett, J. P., Polanski, K., Miranda, A. M. A., Xu, C., Cranley, J., Kanemaru, K., Lee, M., Mach, L., Perera, S., Tudor, C., Joseph, P. D., Pritchard, S., Toscano-Rivalta, R., Tuong, Z. K., Bolt, L., Petryszak, R., Prete, M., Cakir, B., Huseynov, A., Sarropoulos, I., Chowdhury, R. A., Elmentaite, R., Madissoon, E., Oliver, A. J., Campos, L., Brazovskaja, A., Gomes, T., Treutlein, B., Kim, C. N., Nowakowski, T. J., Meyer, K. B., Randi, A. M., Noseda, M., & Teichmann, S. A. (2024). An organotypic atlas of human vascular cells. Nature Medicine, 30(12), 3468-3481. |
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Blank, V., Karlas, T., Anderegg, U., Wiegand, J., Arnold, J., Bundalian, L., Le Duc, G.-D., Körner, C., Ebert, T., & Saalbach, A. (2024). Thy‐1 restricts steatosis and liver fibrosis in steatotic liver disease. Liver International, 44(8), 2075-2090. |
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Brazovskaja, A., Gomes, T., Holtackers, R., Wahle, P., Körner, C., He, Z., Schaffer, T., Eckel, J. C., Hänsel, R., Santel, M., Seimiya, M., Denecke, T., Dannemann, M., Brosch, M., Hampe, J., Seehofer, D., Damm, G., Camp, J. G., & Treutlein, B. (2024). Cell atlas of the regenerating human liver after portal vein embolization. Nature Communications, 15: 5827. |
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Brunet-Ratnasingham, E., Morin, S., Randolph, H. E., Labrecque, M., Bélair, J., Lima-Barbosa, R., Pagliuzza, A., Marchitto, L., Hultström, M., Niessl, J., Cloutier, R., Sreng Flores, A. M., Brassard, N., Benlarbi, M., Prévost, J., Ding, S., Anand, S. P., Sannier, G., Marks, A., Wågsäter, D., Bareke, E., Zeberg, H., Lipcsey, M., Frithiof, R., Larsson, A., Zhou, S., Nakanishi, T., Morrison, D., Vezina, D., Bourassa, C., Gendron-Lepage, G., Medjahed, H., Point, F., Richard, J., Larochelle, C., Prat, A., Cunningham, J. L., Arbour, N., Durand, M., Richards, J. B., Moon, K., Chomont, N., Finzi, A., Tétreault, M., Barreiro, L., Wolf, G., & Kaufmann, D. E. (2024). Sustained IFN signaling is associated with delayed development of SARS-CoV-2-specific immunity. Nature Communications, 15: 4177. |
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Cooke, N. P., Murray, M., Cassidy, L. M., Mattiangeli, V., Okazaki, K., Kasai, K., Gakuhari, T., Bradley, D. G., & Nakagome, S. (2024). Genomic imputation of ancient Asian populations contrasts local adaptation in pre- and post-agricultural Japan. iScience, 27(6): 110050. |
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Fellows Yates, J. A., Warinner, C., Andrades Valtueña, A., Borry, M., Guellil, M., Herbig, A., Hiß, A. N., Hübner, A., Kocher, A., Lamnidis, T. C., Michel, M., Nota, K., Oskolkov, N., Pach, A. L., Pérez, V., Schmid, C., Velsko, I. M., Warner, R., Zampirolo, G., & Zeibig, T. (2024). Introduction to ancient metagenomics (2024.2). Zenodo. |
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Fortes-Lima, C. A., Burgarella, C., Hammarén, R., Eriksson, A., Vicente, M., Jolly, C., Semo, A., Gunnink, H., Pacchiarotti, S., Mundeke, L., Matonda, I., Muluwa, J. K., Coutros, P., Nyambe, T. S., Cikomola, J. C., Coetzee, V., de Castro, M., Ebbesen, P., Delanghe, J., Stoneking, M., Barham, L., Lombard, M., Meyer, A., Steyn, M., Malmström, H., Rocha, J., Soodyall, H., Pakendorf, B., Bostoen, K., & Schlebusch, C. M. (2024). The genetic legacy of the expansion of Bantu-speaking peoples in Africa. Nature, 625, 540-547. |
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Gnecchi-Ruscone, G. A. *., Rácz, Z., Samu, L., Szeniczey, T., Faragó, N., Knipper, C., Friedrich, R., Zlámalová, D., Traverso, L., Liccardo, S., Wabnitz, S., Popli, D. R., Wang, K., Radzeviciute, R., Gulyás, B., Koncz, I., Balogh, C., Lezsák, G. M., Mácsai, V., Bunbury, M. M. E., Spekker, O., le Roux, P., Szécsényi-Nagy, A., Mende, B. G., Colleran, H., Hajdu, T., Geary, P., Pohl, W., Vida, T., Krause, J. *., & Hofmanová, Z. *. (2024). Network of large pedigrees reveals social practices of Avar communities. Nature, 629(8011), 376-383. |
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Han, S., de Filippo, C., Parra, G., Meneu Hernández, J. R., Laurent, R., Frandsen, P., Hvilsom, C., Gronau, I., Marques-Bonet, T., Kuhlwilm, M., & Andrés, A. M. (2024). Deep genetic substructure within bonobos. Current Biology, 34(22): e3, pp. 5341-5348. |
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Helmbrecht, N., Lackner, M., Maricic, T., & Pääbo, S. (2024). The modern human aryl hydrocarbon receptor is more active when ancestralized by genome editing. Proceedings of the National Academy of Sciences, 121(22): e2402159121. |
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Iasi, L. N., Chintalapati, M., Skov, L., Bossoms Mesa, A., Hajdinjak, M., Peter, B. M., & Moorjani, P. (2024). Neanderthal ancestry through time: Insights from genomes of ancient and present-day humans. Science, 386(6727). |
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Martin, N., Nota, K., Aumont, C., Marchand, G., & Marguerie, D. (2024). Anthropic and climatic impacts on biodiversity during the Mesolithic-Neolithic transition in North-Western France. Quaternary International, 714: 109586. |
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Micheel, J., Safrastyan, A., Aron, F., & Wollny, D. (2024). Exploring the impact of primer length on efficient gene detection via high-throughput sequencing. Nature Communications, 15: 5858. |
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Mylopotamitaki, D., Weiss, M., Fewlass, H., Zavala, E. I., Rougier, H., Sümer, A., Hajdinjak, M., Smith, G. M., Ruebens, K., Sinet-Mathiot, V., Pederzani, S., Essel, E., Harking, F. S., Xia, H., Hansen, J., Kirchner, A., Lauer, T., Stahlschmidt, M., Hein, M., Talamo, S., Wacker, L., Meller, H., Dietl, H., Orschiedt, J., Olsen, J. V., Zeberg, H., Prüfer, K., Krause, J., Meyer, M., Welker, F., McPherron, S. P., Schüler, T., & Hublin, J.-J. (2024). Homo sapiens reached the higher latitudes of Europe by 45,000 years ago. Nature, 626, 341-346. |
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Nakagome, S., & Cooke, N. P. (2024). Male-driven admixture facilitated subsistence shift in northern China. Anthropological Science, 132(2), 79-84. |
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Pederzani, S., Britton, K., Trost, M., Fewlass, H., Bourgon, N., McCormack, J., Jaouen, K., Dietl, H., Döhle, H.-J., Kirchner, A., Lauer, T., Le Corre, M., McPherron, S. P., Meller, H., Mylopotamitaki, D., Orschiedt, J., Rougier, H., Ruebens, K., Schüler, T., Sinet-Mathiot, V., Smith, G. M., Talamo, S., Tütken, T., Welker, F., Zavala, E. I., Weiss, M., & Hublin, J.-J. (2024). Stable isotopes show Homo sapiens dispersed into cold steppes ~45,000 years ago at Ilsenhöhle in Ranis, Germany. Nature Ecology & Evolution. |
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Rees, J., Sarangi, G. K., Cheng, Q., Floor, M., Andrés, A. M., Miguel, B. O., Villà-Freixa, J., Arnér, E. S., & Castellano, S. (2024). Ancient loss of catalytic selenocysteine spurred convergent adaptation in a mammalian oxidoreductase. Genome Biology and Evolution, 16(3): evae041. |
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Smith, G. M., Ruebens, K., Zavala, E. I., Sinet-Mathiot, V., Fewlass, H., Pederzani, S., Jaouen, K., Mylopotamitaki, D., Britton, K., Rougier, H., Stahlschmidt, M., Meyer, M., Meller, H., Dietl, H., Orschiedt, J., Krause, J., Schüler, T., McPherron, S. P., Weiss, M., Hublin, J.-J., & Welker, F. (2024). The ecology, subsistence and diet of ~45,000-year-old Homo sapiens at Ilsenhöhle in Ranis, Germany. Nature Ecology & Evolution. |
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Thao, D. H., Dinh, T. H., Mitsunaga, S., Duy, L. D., Phuong, N. T., Anh, N. P., Anh, N. T., Duc, B. M., Hue, H. T. T., Ha, N. H., Ton, N. D., Hübner, A., Pakendorf, B., Stoneking, M., Inoue, I., Duong, N. T., & Hai, N. V. (2024). Investigating demic versus cultural diffusion and sex bias in the spread of Austronesian languages in Vietnam. PLoS One, 19(6): e0304964. |
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Woravatin, W., Wongkomonched, R., Tassaneeyakul, W., Stoneking, M., Makarawate, P., & Kutanan, W. (2024). Complete mitochondrial genomes of patients from Thailand with cardiovascular diseases. PLoS One, 19(7): e0307036. |
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Devièse, T., Abrams, G., Hajdinjak, M., Pirson, S., De Groote, I., Di Modica, K., Toussaint, M., Fischer, V., Comeskey, D., Spindler, L., Meyer, M., Semal, P., & Higham, T. (2021). Reply to Van Peer: Direct radiocarbon dating and ancient genomic analysis reveal the true age of the Neanderthals at Spy Cave. Proceedings of the National Academy of Sciences of the United States of America, 118(26): e2107116118. |
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Pakendorf, B., & Stoneking, M. (2021). The genomic prehistory of peoples speaking Khoisan languages. Human Molecular Genetics, 30(2), R49-R55. |
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Picin, A., Benazzi, S., Blasco, R., Hajdinjak, M., Helgen, K. M., Hublin, J.-J., Rosell, J., Skoglund, P., Stringer, C., & Talamo, S. (2021). Comment on “A global environmental crisis 42,000 years ago”. Science, 374(6570): eabi8330. |
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Pugach, I., Hübner, A., Hung, H.-c., Meyer, M., Carson, M. T., & Stoneking, M. (2021). Ancient DNA from Guam and the peopling of the Pacific. Proceedings of the National Academy of Sciences, 118(1): e202211211. |
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Reinscheid, R. K., Mafessoni, F., Lüttjohann, A., Jüngling, K., Pape, H.-C., & Schulz, S. (2021). Neandertal introgression and accumulation of hypomorphic mutations in the neuropeptide S (NPS) system promote attenuated functionality. Peptides, 138: 170506. |
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Shull, G., Haffner, C., Huttner, W. B., Taverna, E., & Kodandaramaiah, S. B. (2021). Manipulation of Single Neural Stem Cells and Neurons in Brain Slices using Robotic Microinjection. Journal of Visualized Experiments, 167: e61599. |
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Stepanova, V., Moczulska, K., Vacano, G. N., Kurochkin, I., Ju, X.-C., Riesenberg, S., Macak, D., Maricic, T., Dombrowski, L., Schörnig, M., Anastassiadis, K., Baker, O., Naumann, R., Khrameeva, E., Vanushkina, A., Stekolschikova, E., Egorova, A., Nkatchev, A., Mazzarino, R., Duval, N., Zubkov, D., Giavalisco, P., Wilkinson, T. G., Patterson, D., Khaitovich, P., & Pääbo, S. (2021). Reduced purine biosynthesis in humans after their divergence from Neandertals. eLife, 10: e58741. |
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Stoneking, M. (2021). Genomic insights into the Out-of-Africa dispersal(s) of modern humans. In M. d. L. Muñoz-Moreno, & M. H. Crawford ( |
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Troitzsch, D., Zhang, H., Dittmann, S., Düsterhöft, D., Möller, T. A., Michel, A.-M., Jänsch, L., Riedel, K., Borrero-de Acuña, J. M., Jahn, D., & Sievers, S. (2021). A point mutation in the transcriptional repressor PerR results in a constitutive oxidative stress response in Clostridioides difficile 630Δerm. mSphere, 6(2): e00091-21. |
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Zavala, E. I., Jacobs, Z., Vernot, B., Shunkov, M. V., Kozlikin, M. B., Derevianko, A. P., Essel, E., de Filippo, C., Nagel, S., Richter, J., Romagné, F., Schmidt, A., Li, B., O’Gorman, K., Slon, V., Kelso, J., Pääbo, S., Roberts, R. G., & Meyer, M. (2021). Pleistocene sediment DNA reveals hominin and faunal turnovers at Denisova Cave. Nature, 595, 399-403. |
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Zeberg, H., & Pääbo, S. (2021). A genomic region associated with protection against severe COVID-19 is inherited from Neandertals. Proceedings of the National Academy of Sciences, 118(9): e2026309118. |
2020
Balzeau, A., Turq, A., Talamo, S., Daujeard, C., Guérin, G., Welker, F., Crevecoeur, I., Fewlass, H., Hublin, J.-J., Lahaye, C., Maureille, B., Meyer, M., Schwab, C., & Gómez-Olivencia, A. (2020). Pluridisciplinary evidence for burial for the La Ferrassie 8 Neandertal child. Scientific Reports, 10: 21230. |
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Bokelmann, L., Glocke, I., & Meyer, M. (2020). Reconstructing double-stranded DNA fragments on a single-molecule level reveals patterns of degradation in ancient samples. Genome Research, 30(10), 1449-1457. |
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Braadbaart, F., Reidsma, F., Roebroeks, W., Chiotti, L., Slon, V., Meyer, M., Théry-Parisot, I., van Hoesel, A., Nierop, K., Kaal, J., van Os, B., & Marquer, L. (2020). Heating histories and taphonomy of ancient fireplaces: A multi-proxy case study from the Upper Palaeolithic sequence of Abri Pataud (Les Eyzies-de-Tayac, France). Journal of Archaeological Science: Reports, 33: 102468. |
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Cauret, C. M. S., Gansauge, M.-T., Tupper, A. S., Furman, B. L. S., Knytl, M., Song, X., Greenbaum, E., Meyer, M., & Evans, B. J. (2020). Developmental systems drift and the drivers of sex chromosome evolution. Molecular Biology and Evolution, 37(3), 799-808. |
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Dannemann, M., He, Z., Heide, C., Vernot, B., Sidow, L., Kanton, S., Weigert, A., Treutlein, B., Pääbo, S., Kelso, J., & Camp, J. G. (2020). Human stem cell resources are an inroad to Neandertal DNA functions. Stem Cell Reports, 15, 214-225. |
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Evans, B. J., Gansauge, M.-T., Tocheri, M. W., Schillaci, M. A., Sutikna, T., Jatmiko, Saptomo, E. W., Klegarth, A., Tosi, A. J., Melnick, D. J., & Meyer, M. (2020). Mitogenomics of macaques (Macaca) across Wallace's Line in the context of modern human dispersals. Journal of Human Evolution, 146: 102852. |
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Gansauge, M.-T., Aximu-Petri, A., Nagel, S., & Meyer, M. (2020). Manual and automated preparation of single-stranded DNA libraries for the sequencing of DNA from ancient biological remains and other sources of highly degraded DNA. Nature Protocols, 15, 2279-2300. |
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Gunnarsdottir, E. D., & Stoneking, M. (2020). Genetic Landscape of Present-Day Hunter-Gatherer Groups. In T. Güldemann ( |
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Hublin, J.-J., Sirakov, N., Aldeias, V., Bailey, S., Bard, E., Delvigne, V., Endarova, E., Fagault, Y., Fewlass, H., Hajdinjak, M., Kromer, B., Krumov, I., Marreiros, J., Martisius, N. L., Paskulin, L., Sinet-Mathiot, V., Meyer, M., Pääbo, S., Popov, V., Rezek, Z., Sirakova, S., Skinner, M. M., Smith, G. M., Spasov, R., Talamo, S., Tuna, T., Wacker, L., Welker, F., Wilcke, A., Zahariev, N., McPherron, S. P., & Tsanova, T. (2020). Initial Upper Palaeolithic Homo sapiens from Bacho Kiro Cave, Bulgaria. Nature, 581(7808), 299-302. |
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Khrameeva, E., Kurochkin, I., Han, D., Guijarro, P., Kanton, S., Santel, M., Qian, Z., Rong, S., Mazin, P., Sabirov, M., Bulat, M., Efimova, O., Tkachev, A., Guo, S., Sherwood, C. C., Camp, J. G., Pääbo, S., Treutlein, B., & Khaitovich, P. (2020). Single-cell-resolution transcriptome map of human, chimpanzee, bonobo, and macaque brains. Genome Research, 30(5), 776-789. |
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Kutanan, W., Shoocongdej, R., Srikummool, M., Hübner, A., Suttipai, T., Srithawong, S., Kampuansai, J., & Stoneking, M. (2020). Cultural variation impacts paternal and maternal genetic lineages of the Hmong-Mien and Sino-Tibetan groups from Thailand. European Journal of Human Genetics, 28, 1563-1579. |
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Lang, P. L. M., Weiß, C. L., Kersten, S., Latorre, S. M., Nagel, S., Nickel, B., Meyer, M., & Burbano, H. A. (2020). Hybridization ddRAD-sequencing for population genomics of nonmodel plants using highly degraded historical specimen DNA. Molecular Ecology Resources, 20(5), 1228-1247. |
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Liu, D., Duong, N. T., Ton, N. D., Van Phong, N., Pakendorf, B., Van Hai, N., & Stoneking, M. (2020). Extensive ethnolinguistic diversity in Vietnam reflects multiple sources of genetic diversity. Molecular Biology and Evolution, 37(9): msaa099, pp. 2503-2519. |
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Mafessoni, F., Grote, S., de Filippo, C., Slon, V., Kolobova, K. A., Viola, B., Markin, S. V., Chintalapati, M., Peyrégne, S., Skov, L., Skoglund, P., Krivoshapkin, A. I., Derevianko, A. P., Meyer, M., Kelso, J., Peter, B., Prüfer, K., & Pääbo, S. (2020). A high-coverage Neandertal genome from Chagyrskaya Cave. Proceedings of the National Academy of Sciences, 117(26), 15132-15136. |
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Maricic, T., Nickel, O., Ayinuer-Petri, A., Essel, E., Gansauge, M.-T., Kanis, P., Macak, D., Riesenberg, S., Bokelmann, L., Zeberg, H., Meyer, M., Borte, S., & Pääbo, S. (2020). A direct RT-qPCR approach to test large numbers of individuals for SARS-CoV-2. PLoS One, 15(12): e0244824. |
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Massilani, D., Skov, L., Hajdinjak, M., Gunchinsuren, B., Tseveendorj, D., Yi, S., Lee, J., Nagel, S., Nickel, B., Devièse, T., Higham, T., Meyer, M., Kelso, J., Peter, B., & Pääbo, S. (2020). Denisovan ancestry and population history of early East Asians. Science, 370(6516), 579-583. |
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Miller, A. J., Yu, Q., Czerwinski, M., Tsai, Y.-H., Conway, R. F., Wu, A., Holloway, E. M., Walker, T., Glass, I. A., Treutlein, B., Camp, J. G., & Spence, J. R. (2020). In vitro and in vivo development of the human airway at single-cell resolution. Developmental Cell, 53(1): e6, pp. 117-128. |
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Ou, M.-Y., Ju, X.-C., Cai, Y.-J., Sun, X.-Y., Wang, J.-F., Fu, X.-Q., Sun, Q., & Luo, Z.-G. (2020). Heterogeneous nuclear ribonucleoprotein A3 controls mitotic progression of neural progenitors via interaction with cohesin. Development, 147: dev185132. |
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Parker, E. C., Rohrlach, A. B., Friederich, S., Nagel, S., Meyer, M., Krause, J. *., Bos, K. I., & Haak, W. *. (2020). A systematic investigation of human DNA preservation in medieval skeletons. Scientific Reports, 10(1): 18225. |
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Pedro, N., Brucato, N., Fernandes, V., André, M., Saag, L., Pomat, W., Besse, C., Boland, A., Deleuze, J.-F., Clarkson, C., Sudoyo, H., Metspalu, M., Stoneking, M., Cox, M. P., Leavesley, M., Pereira, L., & Ricaut, F.-X. (2020). Papuan mitochondrial genomes and the settlement of Sahul. Journal of Human Genetics, 65(875), 887. |
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Peter, B. M., Petkova, D., & Novembre, J. (2020). Genetic landscapes reveal how human genetic diversity aligns with geography. Molecular Biology and Evolution, 37(4), 943-951. |
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Petr, M., Hajdinjak, M., Fu, Q., Essel, E., Rougier, H., Crevecoeur, I., Semal, P., Golovanova, L. V., Doronichev, V. B., Lalueza-Fox, C., de la Rasilla, M., Rosas, A., Shunkov, M. V., Kozlikin, M. B., Derevianko, A. P., Vernot, B., Meyer, M., & Kelso, J. (2020). The evolutionary history of Neanderthal and Denisovan Y chromosomes. Science, 369(6511), 1653-1656. |
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Peyrégne, S. (2020). Tracing the ancestral roots of Neandertals. The Science Breaker, 6(1). |
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Peyrégne, S., & Peter, B. M. (2020). AuthentiCT: A model of ancient DNA damage to estimate the proportion of present-day DNA contamination. Genome Biology, 21: 246. |
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Romandini, M., Gregorio, O., Bortolini, E., Peyrégne, S., Delpiano, D., Nava, A., Panetta, D., Domenico, G. D., Martini, P., Arrighi, S., Badino, F., Figus, C., Lugli, F., Marciani, G., Silvestrini, S., Sartorio, J. C. M., Terlato, G., Hublin, J.-J., Meyer, M., Bondioli, L., Higham, T., Slon, V., Peresani, M., & Benazzi, S. (2020). A late Neanderthal tooth from northeastern Italy. Journal of Human Evolution, 147: 102867. |
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Schulze, F. M. *., Posth, C., Esquivel-Gomez, L. R., Hübler, R., Spyrou, M. A., Neumann, G., Furtwängler, A., Sabin, S., Burri, M., Wissgott, A., Lankapalli, A. K., Vågene, Å. J., Meyer, M., Nagel, S., Tukhbatova, R. I., Khokhlov, A., Chizhevsky, A., Hansen, S., Belinsky, A. B., Kalmykov, A., Kantorovich, A. R., Maslov, V. E., Stockhammer, P. W., Vai, S., Zavattaro, M., Riga, A., Caramelli, D., Skeates, R., Beckett, J., Gradoli, M. G., Steuri, N., Hafner, A., Ramstein, M., Siebke, I., Lösch, S., Erdal, Y. S., Alikhan, N.-F., Zhou, Z., Achtman, M., Bos, K. I., Reinhold, S., Haak, W., Kühnert, D., Herbig, A. *., & Krause, J. *. (2020). Emergence of human-adapted Salmonella enterica is linked to the Neolithization process. Nature Ecology & Evolution, 4, 324-333. |
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Semo, A., Gayà-Vidal, M., Fortes-Lima, C., Alard, B., Oliveira, S., Almeida, J., Prista, A., Damasceno, A., Fehn, A., Schlebusch, C., & Rocha, J. (2020). Along the Indian Ocean coast: Genomic variation in Mozambique provides new insights into the Bantu expansion. Molecular Biology and Evolution, 37(2), 406-416. |
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Skov, L., Macià, M. C., Sveinbjörnsson, G., Mafessoni, F., Lucotte, E. A., Einarsdóttir, M. S., Jonsson, H., Halldorsson, B., Gudbjartsson, D. F., Helgason, A., Schierup, M. H., & Stefansso, K. (2020). The nature of Neanderthal introgression revealed by 27,566 Icelandic genomes. Nature, 582, 78-83. |
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Telford, M., Hughes, D. A., Juan, D., Stoneking, M., Navarro, A., & Santpere, G. (2020). Expanding the Geographic Characterisation of Epstein–Barr Virus Variation through Gene-Based Approaches. Microorganisms, 8: 1686. |
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Voiculescu, S. E., Le Duc, D., Rosca, A. E., & Zagrean, A.-M. (2020). The pineal gland development and its physiology in fetus and neonate. In C. S. Kovacs, & C. L. Deal ( |
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Yang, M. A., Fan, X., Sun, B., Chen, C., Lang, J., Ko, Y.-C., Tsang, C.-h., Chiu, H., Wang, T., Bao, Q., Wu, X., Hajdinjak, M., Ko, A.-M.-S., Ding, M., Cao, P., Yang, R., Liu, F., Nickel, B., Dai, Q., Feng, X., Zhang, L., Sun, C., Ning, C., Zeng, W., Zhao, Y., Zhang, M., Gao, X., Cui, Y., Reich, D., Stoneking, M., & Fu, Q. (2020). Ancient DNA indicates human population shifts and admixture in northern and southern China. Science, 369(6501), 282-288. |
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2019
Barbieri, C., Barquera, R., Arias, L., Sandoval, J. R., Acosta, O., Zurita, C., Aguilar-Campos, A., Tito-Álvarez, A. M., Serrano-Osuna, R., Gray, R. D., Mafessoni, F., Heggarty, P., Shimizu, K. K., Fujita, R., Stoneking, M., Pugach, I., & Fehren-Schmitz, L. (2019). The current genomic landscape of Western South America: Andes, Amazonia, and Pacific Coast. Molecular Biology and Evolution, 36(12), 2698-2713. |
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Bokelmann, L., Hajdinjak, M., Peyrégne, S., Brace, S., Essel, E., de Filippo, C., Glocke, I., Grote, S., Mafessoni, F., Nagel, S., Kelso, J., Prüfer, K., Vernot, B., Barnes, I., Pääbo, S., Meyer, M., & Stringer, C. (2019). A genetic analysis of the Gibraltar Neanderthals. Proceedings of the National Academy of Sciences, 116(31), 15610-15615. |
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Brazovskaja, A., Treutlein, B., & Camp, J. G. (2019). High-throughput single-cell transcriptomics on organoids. Current Opinion in Biotechnology, 55, 167-171. |
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Bücking, R., Cox, M. P., Hudjashov, G., Saag, L., Sudoyo, H., & Stoneking, M. (2019). Archaic mitochondrial DNA inserts in modern day nuclear genomes. BMC Genomics, 20: 1017. |
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Dabney, J., & Meyer, M. (2019). Extraction of highly degraded DNA from ancient bones and teeth. In B. Shapiro, A. Barlow, P. D. Heintzman, M. Hofreiter, J. L. A. Paijmans, & A. E. R. Soares ( |
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Devièse, T., Massilani, D., Yi, S., Comeskey, D., Nagel, S., Nickel, B., Ribechini, E., Lee, J., Tseveendorj, D., Gunchinsuren, B., Meyer, M., Pääbo, S., & Higham, T. (2019). Compound-specific radiocarbon dating and mitochondrial DNA analysis of the Pleistocene hominin from Salkhit Mongolia. Nature Communications, 10(10): 274. |
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