Ancient Biomolecules and Evolutionary Inference

Inference of Population Structure Using Multilocus Genotype Data

Pritchard, J. K., Stephens, M., & Donnelly, P. (2000) · Genetics · doi:10.1093/genetics/155.2.945 · Cited by 33,871 · see citing works

MaxQuant enables high peptide identification rates, individualized p.p.b.-range mass accuracies and proteome-wide protein quantification

Cox, J., & Mann, M. (2008) · Nature Biotechnology · doi:10.1038/nbt.1511 · Cited by 14,855 · see citing works

Instability and decay of the primary structure of DNA

Lindahl, T. (1993) · Nature · doi:10.1038/362709a0 · Cited by 5,679 · see citing works

Andromeda: A Peptide Search Engine Integrated into the MaxQuant Environment

Cox, J., Neuhauser, N., Michalski, A., Scheltema, R. A., Olsen, J. V., & Mann, M. (2011) · Journal of Proteome Research · doi:10.1021/pr101065j · Cited by 5,349 · see citing works

Population Structure and Eigenanalysis

Patterson, N., Price, A. L., & Reich, D. (2006) · PLoS Genetics · doi:10.1371/journal.pgen.0020190 · Cited by 5,280 · see citing works

A draft sequence of the Neandertal genome

Green, R. E., Krause, J., Briggs, A. W., Maricic, T., Stenzel, U., Kircher, M., Patterson, N., Li, H., Zhai, W., Fritz, M. H.-Y., et al. (2010) · Science · doi:10.1126/science.1188021 · Cited by 4,318 · see citing works

Collagen Structure and Stability

Shoulders, M. D., & Raines, R. T. (2009) · Annual Review of Biochemistry · doi:10.1146/annurev.biochem.77.032207.120833 · Cited by 3,923 · see citing works

ANGSD: Analysis of Next Generation Sequencing Data

Korneliussen, T. S., Albrechtsen, A., & Nielsen, R. (2014) · BMC Bioinformatics · doi:10.1186/s12859-014-0356-4 · Cited by 2,982 · see citing works

Inference of human population history from individual whole-genome sequences

Li, H., & Durbin, R. (2011) · Nature · doi:10.1038/nature10231 · Cited by 2,590 · see citing works

The complete genome sequence of a Neanderthal from the Altai Mountains

Prüfer, K., Racimo, F., Patterson, N., Jay, F., Sankararaman, S., Sawyer, S., Heinze, A., Renaud, G., Sudmant, P. H., de Filippo, C., et al. (2014) · Nature · doi:10.1038/nature12886 · Cited by 2,254 · see citing works

Massive migration from the steppe was a source for Indo-European languages in Europe

Haak, W., Lazaridis, I., Patterson, N., Rohland, N., Mallick, S., Llamas, B., Brandt, G., Nordenfelt, S., Harney, E., Stewardson, K., et al. (2015) · Nature · doi:10.1038/nature14317 · Cited by 1,940 · see citing works

Analytical Properties of the Nanoelectrospray Ion Source

Wilm, M. S., & Mann, M. (1996) · Analytical Chemistry · doi:10.1021/ac9509519 · Cited by 1,871 · see citing works

Population genomics of Bronze Age Eurasia

Allentoft, M. E., Sikora, M., Sjögren, K.-G., Rasmussen, S., Rasmussen, M., Stenderup, J., Damgaard, P. B., Schroeder, H., Ahlström, T., Vinner, L., et al. (2015) · Nature · doi:10.1038/nature14507 · Cited by 1,550 · see citing works

Genome-wide patterns of selection in 230 ancient Eurasians

Mathieson, I., Lazaridis, I., Rohland, N., Mallick, S., Patterson, N., Roodenberg, S. A., Harney, E., Stewardson, K., Fernandes, D., Novak, M., et al. (2015) · Nature · doi:10.1038/nature16152 · Cited by 1,515 · see citing works

Robust Demographic Inference from Genomic and SNP Data

Excoffier, L., Dupanloup, I., Huerta‐Sánchez, E., Sousa, V. C., & Foll, M. (2013) · PLoS Genetics · doi:10.1371/journal.pgen.1003905 · Cited by 1,434 · see citing works

Solution hybrid selection with ultra-long oligonucleotides for massively parallel targeted sequencing

Gnirke, A., Melnikov, A., Maguire, J., Rogov, P., LeProust, E. M., Brockman, W., Fennell, T., Giannoukos, G., Fisher, S., Russ, C., et al. (2009) · Nature Biotechnology · doi:10.1038/nbt.1523 · Cited by 1,433 · cited 1× · see citing works

PEAKS: powerful software for peptide de novo sequencing by tandem mass spectrometry

Ma, B., Zhang, K., Hendrie, C., Liang, C., Li, M., Doherty‐Kirby, A., & Lajoie, G. (2003) · Rapid Communications in Mass Spectrometry · doi:10.1002/rcm.1196 · Cited by 1,382 · see citing works

Mass spectrometry in proteomics.

Aebersold, R., & Goodlett, D. (2001) · Chemical Reviews · doi:10.1021/cr990076h · Cited by 1,378 · see citing works

Single-cell genome sequencing: current state of the science

Gawad, C., Koh, W., & Quake, S. R. (2016) · Nature Reviews Genetics · doi:10.1038/nrg.2015.16 · Cited by 1,334 · see citing works

Deamidation, isomerization, and racemization at asparaginyl and aspartyl residues in peptides. Succinimide-linked reactions that contribute to protein degradation.

Geiger, T. L., & Clarke, S. G. (1987) · Journal of Biological Chemistry · doi:10.1016/s0021-9258(19)75855-4 · Cited by 1,312 · see citing works

Archean Molecular Fossils and the Early Rise of Eukaryotes

Brocks, J. J., Logan, G. A., Buick, R., & Summons, R. E. (1999) · Science · doi:10.1126/science.285.5430.1033 · Cited by 1,275 · see citing works

Distributional variations in marine crenarchaeotal membrane lipids: a new tool for reconstructing ancient sea water temperatures?

Stefan Schouten, A., Hopmans, E. C., Schefuß, E., & Damsté, J. S. S. (2002) · Earth and Planetary Science Letters · doi:10.1016/s0012-821x(02)00979-2 · Cited by 1,274 · see citing works

Altitude adaptation in Tibetans caused by introgression of Denisovan-like DNA

Huerta-Sánchez, E., Jin, X., Asan, Bianba, Z., Peter, B. M., Vinckenbosch, N., Liang, Y., Yi, X., He, M., Somel, M., et al. (2014) · Nature · doi:10.1038/nature13408 · Cited by 1,208 · see citing works

Molecular stratigraphy: a new tool for climatic assessment

Brassell, S. C., Eglinton, G., Marlowe, I. T., Pflaumann, U., & Sarnthein, M. (1986) · Nature · doi:10.1038/320129a0 · Cited by 1,182 · see citing works

Introduction to Organic Geochemistry

Killops, S. D., & Killops, V. (2004) · Wiley eBooks · doi:10.1002/9781118697214 · Cited by 991 · see citing works

2-Methylhopanoids as biomarkers for cyanobacterial oxygenic photosynthesis

Summons, R. E., Jahnke, L. L., Hope, J. M., & Logan, G. A. (1999) · Nature · doi:10.1038/23005 · Cited by 975 · see citing works

Upper Palaeolithic Siberian genome reveals dual ancestry of Native Americans

Raghavan, M., Skoglund, P., Graf, K. E., Metspalu, M., Albrechtsen, A., Moltke, I., Rasmussen, S., Stafford Jr, T. W., Orlando, L., Metspalu, E., et al. (2014) · Nature · doi:10.1038/nature12736 · Cited by 963 · see citing works

Ancient human genome sequence of an extinct Palaeo-Eskimo

Rasmussen, M., Li, Y., Lindgreen, S., Pedersen, J. S., Albrechtsen, A., Moltke, I., Metspalu, M., Metspalu, E., Kivisild, T., Gupta, R., et al. (2010) · Nature · doi:10.1038/nature08835 · Cited by 849 · see citing works

Recalibrating equus evolution using the genome sequence of an early middle pleistocene horse

Orlando, L., Ginolhac, A., Zhang, G., Froese, D., Albrechtsen, A., Stiller, M., Schubert, M., Cappellini, E., Petersen, B., Moltke, I., et al. (2013) · Nature · doi:10.1038/nature12323 · Cited by 841 · see citing works

A draft genome of Yersinia pestis from victims of the Black Death

Bos, K. I., Schuenemann, V. J., Golding, G. B., Burbano, H. A., Waglechner, N., Coombes, B. K., McPhee, J. B., DeWitte, S. N., Meyer, M., Schmedes, S. E., et al. (2011) · Nature · doi:10.1038/nature10549 · Cited by 808 · see citing works

DNA sequences from the quagga, an extinct member of the horse family

Higuchi, R., Bowman, B. H., Freiberger, M., Ryder, O. A., & Wilson, A. C. (1984) · Nature · doi:10.1038/312282a0 · Cited by 791 · see citing works

An aboriginal Australian genome reveals separate human dispersals into Asia

Rasmussen, M., Guo, X., Wang, Y., Lohmueller, K. E., Rasmussen, S., Albrechtsen, A., Skotte, L., Lindgreen, S., Metspalu, M., Jombart, T., et al. (2011) · Science · doi:10.1126/science.1211177 · Cited by 787 · see citing works

The Earliest Horse Harnessing and Milking

Outram, A. K., Stear, N. A., Bendrey, R., Olsen, S. L., Kasparov, A., Zaibert, V. F., Thorpe, N., & Evershed, R. P. (2009) · Science · doi:10.1126/science.1168594 · Cited by 741 · see citing works

The Beaker phenomenon and the genomic transformation of northwest Europe

Olalde, Í., Brace, S., Allentoft, M. E., Armit, I., Kristiansen, K., Booth, T. J., Rohland, N., Mallick, S., Szécsényi‐Nagy, A., Mittnik, A., et al. (2018) · Nature · doi:10.1038/nature25738 · Cited by 734 · see citing works

Fossil steroids record the appearance of Demospongiae during the Cryogenian period

Love, G. D., Grosjean, E., Stalvies, C., Fike, D. A., Grotzinger, J. P., Bradley, A. S., Kelly, A. E., Bhatia, M., Meredith, W., Snape, C. E., et al. (2009) · Nature · doi:10.1038/nature07673 · Cited by 731 · cited 1× · see citing works

Subtropical Arctic Ocean temperatures during the Palaeocene/Eocene thermal maximum

Scientists, T. E. 3., Sluijs, A., Schouten, S., Pagani, M., Woltering, M., Brinkhuis, H., Damsté, J. S. S., Dickens, G. R., Huber, M., Reichart, G.-J., et al. (2006) · Nature · doi:10.1038/nature04668 · Cited by 729 · see citing works

Tracing the peopling of the world through genomics

Nielsen, R., Akey, J. M., Jakobsson, M., Pritchard, J. K., Tishkoff, S., & Willerslev, E. (2017) · Nature · doi:10.1038/nature21347 · Cited by 728 · see citing works

The genomic history of southeastern Europe

Mathieson, I., Alpaslan-Roodenberg, S., Posth, C., Szécsényi‐Nagy, A., Rohland, N., Mallick, S., Olalde, Í., Broomandkhoshbacht, N., Candilio, F., Cheronet, O., et al. (2018) · Nature · doi:10.1038/nature25778 · Cited by 720 · see citing works

Expansion of C4 ecosystems as an indicator of global ecological change in the late Miocene

Cerling, T. E., Wang, Y., & Quade, J. (1993) · Nature · doi:10.1038/361344a0 · Cited by 713 · see citing works

Species-specific responses of Late Quaternary megafauna to climate and humans

Lorenzen, E. D., Nogués‐Bravo, D., Orlando, L., Weinstock, J., Binladen, J., Marske, K. A., Ugan, A., Borregaard, M. K., Gilbert, M. T. P., Nielsen, R., et al. (2011) · Nature · doi:10.1038/nature10574 · Cited by 691 · see citing works

Diverse Plant and Animal Genetic Records from Holocene and Pleistocene Sediments

Willerslev, E., Hansen, A. J., Binladen, J., Brand, T. B., Gilbert, M. T. P., Shapiro, B., Bunce, M., Wiuf, C., Gilichinsky, D. A., & Cooper, A. (2003) · Science · doi:10.1126/science.1084114 · Cited by 687 · see citing works

DNA sequences from multiple amplifications reveal artifacts induced by cytosine deamination in ancient DNA

Hofreiter, M. (2001) · Nucleic Acids Research · doi:10.1093/nar/29.23.4793 · Cited by 684 · see citing works

ORGANIC RESIDUE ANALYSIS IN ARCHAEOLOGY: THE ARCHAEOLOGICAL BIOMARKER REVOLUTION*

Evershed, R. P. (2008) · Archaeometry · doi:10.1111/j.1475-4754.2008.00446.x · Cited by 683 · see citing works

Direct selection of human genomic loci by microarray hybridization

Albert, T. J., Molla, M. N., Muzny, D. M., Nazareth, L., Wheeler, D., Song, X., Richmond, T. A., Middle, C. M., Rodesch, M. J., Packard, C. J., et al. (2007) · Nature Methods · doi:10.1038/nmeth1111 · Cited by 681 · see citing works

Earliest Date for Milk Use in the Near East and Southeastern Europe Linked to Cattle Herding

Evershed, R. P., Payne, S., Sherratt, A. G., Copley, M. S., Coolidge, J., Urem-Kotsu, D., Kotsakis, K., Özdoğan, M., Özdoğan, A. E., Nieuwenhuyse, O., et al. (2008) · Nature · doi:10.1038/nature07180 · Cited by 681 · see citing works

Rise and Fall of the Beringian Steppe Bison

Shapiro, B., Drummond, A. J., Rambaut, A., Wilson, M. C., Matheus, P. E., Sher, A. V., Pybus, O. G., Gilbert, M. T. P., Barnes, I., Binladen, J., et al. (2004) · Science · doi:10.1126/science.1101074 · Cited by 675 · see citing works

Chemical Fossils: The Geological Fate of Steroids

Mackenzie, A. S., Brassell, S. C., Eglinton, G., & Maxwell, J. R. (1982) · Science · doi:10.1126/science.217.4559.491 · Cited by 670 · see citing works

Species identification by analysis of bone collagen using matrix‐assisted laser desorption/ionisation time‐of‐flight mass spectrometry

Buckley, M., Collins, M. J., THOMAS‐OATES, J. E., & Wilson, J. C. (2009) · Rapid Communications in Mass Spectrometry · doi:10.1002/rcm.4316 · Cited by 657 · see citing works

Parallel adaptive radiations in two major clades of placental mammals

Madsen, O., Scally, M., Douady, C. J., Kao, D. J., DeBry, R. W., Adkins, R., Amrine, H. M., Stanhope, M. J., de Jong, W. W., & Springer, M. S. (2001) · Nature · doi:10.1038/35054544 · Cited by 653 · see citing works

The half-life of DNA in bone: measuring decay kinetics in 158 dated fossils

Allentoft, M. E., Collins, M., Harker, D., Haile, J., Oskam, C. L., Hale, M. L., Campos, P. F., Samaniego, J. A., Gilbert, M. T. P., Willerslev, E., et al. (2012) · Proceedings of the Royal Society B: Biological Sciences · doi:10.1098/rspb.2012.1745 · Cited by 633 · see citing works

Sequencing ancient calcified dental plaque shows changes in oral microbiota with dietary shifts of the Neolithic and Industrial revolutions

Adler, C. J., Dobney, K., Weyrich, L. S., Kaidonis, J., Walker, A. W., Haak, W., Bradshaw, C. J. A., Townsend, G., Sołtysiak, A., Alt, K. W., et al. (2013) · Nature Genetics · doi:10.1038/ng.2536 · Cited by 621 · see citing works

Pathogens and host immunity in the ancient human oral cavity

Warinner, C., Rodrigues, J. F. M., Vyas, R., Trachsel, C., Shved, N., Grossmann, J., Radini, A., Hancock, Y., Tito, R. Y., Fiddyment, S., et al. (2014) · Nature Genetics · doi:10.1038/ng.2906 · Cited by 618 · see citing works

Origins and Genetic Legacy of Neolithic Farmers and Hunter-Gatherers in Europe

Skoglund, P., Malmström, H., Raghavan, M., Storå, J., Hall, P. N., Willerslev, E., Gilbert, M. T. P., Götherström, A., & Jakobsson, M. (2012) · Science · doi:10.1126/science.1216304 · Cited by 593 · see citing works

Nuclear DNA sequences from the Middle Pleistocene Sima de los Huesos hominins

Meyer, M., Arsuaga, J.-L., de Filippo, C., Nagel, S., Aximu-Petri, A., Nickel, B., Martínez, I., Gracia, A., de Castro, J. M. B., Carbonell, E., et al. (2016) · Nature · doi:10.1038/nature17405 · Cited by 584 · see citing works

Neanderthal behaviour, diet, and disease inferred from ancient DNA in dental calculus

Weyrich, L. S., Duchêne, S., Soubrier, J., Arriola, L. A., Llamas, B., Breen, J., Morris, A. G., Alt, K. W., Caramelli, D., Dresely, V., et al. (2017) · Nature · doi:10.1038/nature21674 · Cited by 584 · see citing works

Progress in Top-Down Proteomics and the Analysis of Proteoforms

Toby, T. K., Fornelli, L., & Kelleher, N. L. (2016) · Annual Review of Analytical Chemistry · doi:10.1146/annurev-anchem-071015-041550 · Cited by 576 · see citing works

Fifty thousand years of Arctic vegetation and megafaunal diet

Willerslev, E., Davison, J., Moora, M., Zobel, M., Coissac, É., Edwards, M. E., Lorenzen, E. D., Vestergård, M., Gussarova, G. L., Haile, J., et al. (2014) · Nature · doi:10.1038/nature12921 · Cited by 570 · see citing works

The genome of a Late Pleistocene human from a Clovis burial site in western Montana

Rasmussen, M., Anzick, S. L., Waters, M. R., Skoglund, P., DeGiorgio, M., Stafford, T. W., Rasmussen, S., Moltke, I., Albrechtsen, A., Doyle, S. M., et al. (2014) · Nature · doi:10.1038/nature13025 · Cited by 562 · see citing works

Early Divergent Strains of Yersinia pestis in Eurasia 5,000 Years Ago

Rasmussen, S., Allentoft, M. E., Nielsen, K. R., Orlando, L., Sikora, M., Sjögren, K.-G., Pedersen, A. G., Schubert, M., Dam, A. V., Kapel, C. M. O., et al. (2015) · Cell · doi:10.1016/j.cell.2015.10.009 · Cited by 557 · see citing works

Ancient DNA, pig domestication, and the spread of the Neolithic into Europe

Larson, G., Albarella, U., Dobney, K. M., Rowley-Conwy, P. A., Schibler, J., Tresset, A., Vigne, J., Edwards, C. J., Schlumbaum, A., Dinu, A., et al. (2007) · Proceedings of the National Academy of Sciences · doi:10.1073/pnas.0703411104 · Cited by 535 · see citing works

Evidence for archaic adaptive introgression in humans

Racimo, F., Sankararaman, S., Nielsen, R., & Huerta-Sánchez, E. (2015) · Nature Reviews Genetics · doi:10.1038/nrg3936 · Cited by 521 · see citing works

Ancient Biomolecules from Deep Ice Cores Reveal a Forested Southern Greenland

Willerslev, E., Cappellini, E., Boomsma, W., Nielsen, R., Hebsgaard, M. B., Brand, T. B., Hofreiter, M., Bunce, M., Poinar, H. N., Dahl‐Jensen, D., et al. (2007) · Science · doi:10.1126/science.1141758 · Cited by 521 · see citing works

Characterization of ancient and modern genomes by SNP detection and phylogenomic and metagenomic analysis using PALEOMIX

Schubert, M., Ermini, L., Sarkissian, C. S. I. D., Jónsson, H., Ginolhac, A., Schaefer, R., Martin, M. D., Fernández, R., Kircher, M., McCue, M. E., et al. (2014) · Nature Protocols · doi:10.1038/nprot.2014.063 · Cited by 515 · see citing works

Earliest evidence for cheese making in the sixth millennium bc in northern Europe

Roffet‐Salque, M., Bogucki, P., Pyzel, J., Sobkowiak‐Tabaka, I., Grygiel, R., Szmyt, M., & Evershed, R. P. (2012) · Nature · doi:10.1038/nature11698 · Cited by 513 · see citing works

Separating endogenous ancient DNA from modern day contamination in a Siberian Neandertal

Skoglund, P., Northoff, B. H., Shunkov, M. V., Derevianko, A. P., Pääbo, S., Krause, J., & Jakobsson, M. (2014) · Proceedings of the National Academy of Sciences · doi:10.1073/pnas.1318934111 · Cited by 499 · see citing works

Direct chemical evidence for widespread dairying in prehistoric Britain

Copley, M. S., Berstan, R., Dudd, S. N., Docherty, G., Mukherjee, A. J., Straker, V., Payne, S., & Evershed, R. P. (2003) · Proceedings of the National Academy of Sciences · doi:10.1073/pnas.0335955100 · Cited by 492 · see citing works

Isotope-ratio-monitoring gas chromatography-mass spectrometry

Matthews, D. E., & Hayes, J. M. (1978) · Analytical Chemistry · doi:10.1021/ac50033a022 · Cited by 491 · see citing works

Optimal ancient DNA yields from the inner ear part of the human petrous bone

Pinhasi, R., Fernandes, D., Sirak, K., Novak, M., Connell, S., Alpaslan-Roodenberg, S., Gerritsen, F., Moiseyev, V., Gromov, A., Raczky, P., et al. (2015) · PLoS ONE · doi:10.1371/journal.pone.0129102 · Cited by 487 · see citing works

Neandertal and Denisovan DNA from Pleistocene sediments

Slon, V., Hopfe, C., Weiß, C. L., Mafessoni, F., Vives, M. D. L. R., Lalueza‐Fox, C., Rosas, A., Soressi, M., Knul, M. V., Miller, R., et al. (2017) · Science · doi:10.1126/science.aam9695 · Cited by 451 · see citing works

Genomic and archaeological evidence suggest a dual origin of domestic dogs

Frantz, L., Mullin, V. E., Pionnier-Capitan, M., Lebrasseur, O., Ollivier, M., Perri, A. R., Linderholm, A. E., Mattiangeli, V., Teasdale, M. D., Dimopoulos, E. A., et al. (2016) · Science · doi:10.1126/science.aaf3161 · Cited by 449 · see citing works

Postglacial viability and colonization in North America’s ice-free corridor

Pedersen, M. W., Ruter, A., Schweger, C. E., Friebe, H., Staff, R. A., Kjeldsen, K. K., Mendoza, M. L. Z., Beaudoin, A. B., Zutter, C., Larsen, N. K., et al. (2016) · Nature · doi:10.1038/nature19085 · Cited by 445 · see citing works

De novo peptide sequencing by deep learning

Tran, N. H., Zhang, X., Xin, L., Shan, B., & Li, M. (2017) · Proceedings of the National Academy of Sciences · doi:10.1073/pnas.1705691114 · Cited by 436 · see citing works

First dairying in green Saharan Africa in the fifth millennium bc

Dunne, J., Evershed, R. P., Roffet‐Salque, M., Cramp, L., Bruni, S., Ryan, K., Biagetti, S., & di Lernia, S. (2012) · Nature · doi:10.1038/nature11186 · Cited by 436 · see citing works

Terminal Pleistocene Alaskan genome reveals first founding population of Native Americans

Moreno-Mayar, J. V., Potter, B. A., Vinner, L., Steinrücken, M., Rasmussen, S., Terhorst, J., Kamm, J., Albrechtsen, A., Malaspinas, A., Sikora, M., et al. (2018) · Nature · doi:10.1038/nature25173 · Cited by 423 · see citing works

Sequence database searches viade novo peptide sequencing by tandem mass spectrometry

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Ancient and modern environmental DNA

Pedersen, M. W., Overballe‐Petersen, S., Ermini, L., Sarkissian, C. S. I. D., Haile, J., Hellström, M., Spens, J., Thomsen, P. F., Bohmann, K., Cappellini, E., et al. (2014) · Philosophical Transactions of the Royal Society B Biological Sciences · doi:10.1098/rstb.2013.0383 · Cited by 396 · see citing works

Ancient genomes revisit the ancestry of domestic and Przewalski’s horses

Gaunitz, C., Fages, A., Hanghøj, K., Albrechtsen, A., Khan, N., Schubert, M., Seguin‐Orlando, A., Owens, I. J., Felkel, S., Bignon‐Lau, O., et al. (2018) · Science · doi:10.1126/science.aao3297 · Cited by 371 · see citing works

Ancient proteins resolve the evolutionary history of Darwin’s South American ungulates

Welker, F., Collins, M. J., Thomas, J. A., Wadsley, M. K., Brace, S., Cappellini, E., Turvey, S. T., Reguero, M. A., Gelfo, J. N., Kramarz, A., et al. (2015) · Nature · doi:10.1038/nature14249 · Cited by 365 · see citing works

mapDamage: testing for damage patterns in ancient DNA sequences

Ginolhac, A., Rasmussen, M., Gilbert, M. T. P., Willerslev, E., & Orlando, L. (2011) · Bioinformatics · doi:10.1093/bioinformatics/btr347 · Cited by 363 · see citing works

Earliest evidence for the use of pottery

Craig, O. E., Saul, H., Lucquin, A., Nishida, Y., Taché, K., Clarke, L. J., Thompson, A., Altoft, D. T., Uchiyama, J., Ajimoto, M., et al. (2013) · Nature · doi:10.1038/nature12109 · Cited by 362 · see citing works

Direct Demonstration of Milk as an Element of Archaeological Economies

Dudd, S. N., & Evershed, R. P. (1998) · Science · doi:10.1126/science.282.5393.1478 · Cited by 360 · see citing works

Palaeoproteomic evidence identifies archaic hominins associated with the Châtelperronian at the Grotte du Renne

Welker, F., Hajdinjak, M., Talamo, S., Jaouen, K., Dannemann, M., David, F., Julien, M., Meyer, M., Kelso, J. F., Barnes, I., et al. (2016) · Proceedings of the National Academy of Sciences · doi:10.1073/pnas.1605834113 · Cited by 360 · see citing works

Polar and brown bear genomes reveal ancient admixture and demographic footprints of past climate change

Miller, W., Schuster, S. C., Welch, A. J., Ratan, A., Bedoya-Reina, O. C., Zhao, F., Kim, H. L., Burhans, R. C., Drautz, D. I., Wittekindt, N. E., et al. (2012) · Proceedings of the National Academy of Sciences · doi:10.1073/pnas.1210506109 · Cited by 353 · see citing works

Deamidation of Glutaminyl and Asparaginyl Residues in Peptides and Proteins

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Bioinformatic challenges for DNA metabarcoding of plants and animals

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Forensic proteomics

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The Pre-Columbian Peopling and Population Dispersals of South America

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Deep learning-driven fragment ion series classification enables highly precise and sensitive de novo peptide sequencing

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Paleoproteomic profiling of organic residues on prehistoric pottery from Malta

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Revisiting proboscidean phylogeny and evolution through total evidence and palaeogenetic analyses including Notiomastodon ancient DNA

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Permafrost preservation reveals proteomic evidence for yak milk consumption in the 13th century

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A mirror-image protein-based information barcoding and storage technology

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Genomic ancestry, diet and microbiomes of Upper Palaeolithic hunter-gatherers from San Teodoro cave

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Toward a clearer view into human prehistory

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Comprehensive Metabolic and Taxonomic Reconstruction of an Ancient Microbial Mat From the McMurdo Ice Shelf (Antarctica) by Integrating Genetic, Metaproteomic and Lipid Biomarker Analyses

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Early Pleistocene enamel proteome sequences from Dmanisi resolve <i>Stephanorhinus</i> phylogeny

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The elusive parasite: comparing macroscopic, immunological, and genomic approaches to identifying malaria in human skeletal remains from Sayala, Egypt (third to sixth centuries AD)

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Evolving Perspective on the Origin and Diversification of Cellular Life and the Virosphere

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Meta-proteomic analysis of two mammoth’s trunks by EVA technology and high-resolution mass spectrometry for an indirect picture of their habitat and the characterization of the collagen type I, alpha-1 and alpha-2 sequence

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Uncovering the genomic and metagenomic research potential in old ethanol-preserved snakes

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Palaeoproteomic identification of breast milk protein residues from the archaeological skeletal remains of a neonatal dog

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Evaluation of DNA in Human Teeth—Ante-Mortem and Post-Mortem Factors Affecting Degradation and Preservation: A Literature Review

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Protein sequence comparison of human and non-human primate tooth proteomes

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Meta-proteomic analysis of the Shandrin mammoth by EVA technology and high-resolution mass spectrometry: what is its gut microbiota telling us?

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Vittrup Man–The life-history of a genetic foreigner in Neolithic Denmark

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EVA Technology and Proteomics: A Two-Pronged Attack on Cultural Heritage

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DNA staining in fossil cells beyond the Quaternary: Reassessment of the evidence and prospects for an improved understanding of DNA preservation in deep time

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Lines in the landscape

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Preservation of corneous β-proteins in Mesozoic feathers

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Extinct species identification from late middle Pleistocene and earlier Upper Pleistocene bone fragments and tools not recognizable from their osteomorphological study by an enhanced proteomics protocol

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Revolutionary Fossils, Ancient Biomolecules, and Reflections in Ethics and Decolonization: Paleoanthropology in 2019

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Palaeoproteomics guidelines to identify proteinaceous binders in artworks following the study of a 15th-century painting by Sandro Botticelli’s workshop

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Interactions at engineered graft–tissue interfaces: A review

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The Technological Condition of Human Evolution: Lithic Studies as Basic Science

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Small molecules as products of evolution

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First paleoproteome study of fossil fish otoliths and the pristine preservation of the biomineral crystal host

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Ancient Faunal History Revealed by Interdisciplinary Biomolecular Approaches

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Count Dracula Resurrected: Proteomic Analysis of Vlad III the Impaler’s Documents by EVA Technology and Mass Spectrometry

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Increasing sustainability in palaeoproteomics by optimizing digestion times for large-scale archaeological bone analyses

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Studying human and nonhuman primate evolutionary biology with powerful in vitro and in vivo functional genomics tools

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Spectrum graph-based de-novo sequencing algorithm MaxNovo achieves high peptide identification rates in collisional dissociation MS/MS spectraPreprint

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Methanotroph-derived bacteriohopanepolyol signatures in sediments covering Miocene brown coal deposits

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Unravelling the Egyptian Embalming Materials by a Multi-Method Approach Comprising High-Resolution Mass Spectrometry

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Cortisol in deciduous tooth tissues: A potential metric for assessing stress exposure in archaeological and living populations

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Geometric morphometrics and paleoproteomics enlighten the paleodiversity of Pongo

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On predictions and laws in biological evolution

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Methodological advances in Neanderthal identification, phylogeny, chronology, mobility, climate, and diet

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Phylogenetic Signal in Primate Tooth Enamel Proteins and its Relevance for Paleoproteomics

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Discovery of specific protein markers in multiple body fluids and their application in forensic science

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Early Holocene preservation differences between cortical and trabecular bone proteomes

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The “biomolecular humanities”? New challenges and perspectives

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Rapid loss of endogenous DNA in pig bone buried in five different environments

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Proteomics in forensics: from source attribution to reconstruction of events

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Mongolia’s Frozen Heritage

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Extinct species identification from Upper Pleistocene bone fragments not identifiable from their osteomorphological studies by proteomics analysisPreprint

Bray, F., Flament, S., Abrams, G., Bonjean, D., Modica, K. D., Rolando, C. H., Tokarski, C., & Auguste, P. (2020) · bioRxiv (Cold Spring Harbor Laboratory) · doi:10.1101/2020.10.06.328021 · Cited by 4 · see citing works

Transforming de novo peptide sequencing by explainable AIPreprint

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Immunoanalytical Detection of Conserved Peptides: Refining the Universe of Biomarker Targets in Planetary Exploration

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What doesn’t meet the eye: molecular insights into adhesive technologies of Neolithic harvesting tools from Central-North Italy

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Bioarchaeology-related studies in the Arabian Gulf: potentialities and shortcomings

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The repertoire of family A-peptide GPCRs in archaic hominins.

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Identification of typical marker proteins of Treponema pallidum in compact human bone using morphological and biochemical techniques

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Unearthing prehistoric diets: First evidence of horse meat consumption in Early Bronze Age Sicily

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Multidisciplinary analyses and ancient DNA reveal social inequality and mobility in the Central Plains during the Eastern Zhou period in China

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Eocene origin of anemone-carrying behaviour in polydectine crabs (Brachyura: Xanthidae)

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Application of lipid biomarkers in deciphering quaternary human evolution in the Indian subcontinent: An integrative review

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Phenolic metabolites from 5,000-year-old coprolites of Myotragus balearicus, an extinct insular bovid

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Archaeological Proteomics

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Geochemical Prospection and the Identification of Site Activity Areas

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Phylogenetic signal in primate tooth enamel proteins and its relevance for paleoproteomicsPreprint

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Peptide Mass Fingerprinting of South American Xenarthrans: A New Resource for Zooarcheology and Palaeontology

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Osteological Sex Estimation Versus Proteomic Sex “Determination”: What Effect Do Our Techniques Have on the Way We View the People of the Past?

King, C. L., Snoddy, A. M. E., Kleffmann, T., Petchey, P., & Buckley, H. R. (2025) · American Journal of Biological Anthropology · doi:10.1002/ajpa.70170 · Cited by 1 · see citing works

Frontier Research in Astrophysics - A Review from a personal point of view

Giovannelli, F., & Sabau-Graziati, L. (2019) · Frontier Research in Astrophysics Workshop (FRAPWS) · doi:10.22323/1.331.0001 · Cited by 1 · see citing works

FRONTIER RESEARCH IN ASTROPHYSICS IN THE GRAVITATIONAL WAVE ERA - II(EXOPLANETS AND EMERGENCE OF LIFE)

Sabau-Graziati, L., & Giovannelli, F. (2021) · Revista Mexicana de Astronomía y Astrofísica Serie de Conferencias · doi:10.22201/ia.14052059p.2021.53.43 · Cited by 1 · see citing works

Piecing together a prehistoric puzzle—regional inferences of micro- and macroscopic analyses of possibly one of the last hybrid mammoths in mainland Western North America

Morrison, K., Usachenko, N., Erdman, J. S., Waters, S., & Love, R. (2024) · Geology of the Intermountain West · doi:10.31711/giw.v11.pp21-44 · Cited by 1 · see citing works

Ancient Foodomics: Analytical Strategies for Reconstruction of Palaeodiets and Implications for Human Health

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Genomic ancestry, diet and microbiomes of Upper Palaeolithic hunter-gatherers from San Teodoro cave (Sicily, Italy)Preprint

Scorrano, G., Nielsen, S. H., Vetro, D. L., Mackie, M., Margaryan, A., Fotakis, A. K., Martínez‐Labarga, C., Fabbri, P. F., Allentoft, M. E., Carra, M., et al. (2021) · bioRxiv (Cold Spring Harbor Laboratory) · doi:10.1101/2021.12.08.471745 · Cited by 1 · see citing works

Ceramics: Organic Residue Analysis

Cubas, M., Becher, J., Chiang, Y., Dekker, J. A. A., Muro, A. D., Doliente, J. E., & Craig, O. E. (2022) · Elsevier eBooks · doi:10.1016/b978-0-323-90799-6.00047-1 · Cited by 1 · see citing works

New developments in high-resolution mass spectrometry for proteomic analysis applied to cultural heritage : study of intact proteins, their cross-linking and interaction in artworks and museum objects

Galluzzi, F. (2021) · theses.fr (ABES) · doi:10.70675/544c95bfz2ddbz4ecaza12dz64e75d212990 · Cited by 1 · see citing works

Applications of mass spectrometry-based proteomics in archaeology and palaeoanthropology

Sawafuji, R., & Tsutaya, T. (2020) · Anthropological Science (Japanese Series) · doi:10.1537/asj.200213

Organic Residues from Archaeological Findings

Ribechini, E. (2021) · Royal Society of Chemistry eBooks · doi:10.1039/9781788015974-00283

Conceptualizing histories of multispecies entanglements: Ancient pathogen genomics and the case of Borrelia recurrentis

Oikkonen, V. (2021) · Journal of Social Archaeology · doi:10.1177/1469605321993942

Typification of two names in the genus Punica L. (Lythraceae)

Ferrer‐Gallego, P. P. (2021) · Acta Botanica Malacitana · doi:10.24310/abm.v46i.11730

Editorial

Welker, F. (2021) · Journal of Proteomics · doi:10.1016/j.jprot.2021.104460

Ancient Protein Sequences

Demarchi, B. (2020) · doi:10.1002/9781119089537.ch5

Biominerals and the Fossil Record

Demarchi, B. (2020) · Wiley eBooks · doi:10.1002/9781119089537.ch1

Proteomics and Genomics as Identification Procedures in Human Anthropology

Ariaei, A., Bahreini, S. M., & Rustamzadeh, A. (2022) · Gene Cell and Tissue · doi:10.5812/gct-131402

Palaeopathology

Grauer, A. L. (2023) · doi:10.1002/9781119592112.ch19

Proceedings from the 10th Scientific Conference Methodology and Archaeometry

Miloglav, I., Vidas, L., Janković, I., Silvestrini, S., Romandini, M., Benazzi, S., Lugli, F., Real, C., Radović, S., Janeš, A., et al. (2023) · doi:10.17234/metarh.2023

Ancient DNA—Overview

O’Rourke, D. H. (2024) · Elsevier eBooks · doi:10.1016/b978-0-323-99931-1.00224-5

A queen’s tale: Assessing the hidden potential of beeswax specimens in Natural History Museum collections

Kasso, T., Mackie, M., Ramsøe, M., Vilhelmsen, L., Gundlach, C., Baier, S., Taurozzi, A. J., & Collins, M. J. (2024) · Open Research Europe · doi:10.12688/openreseurope.18538.1

ProteoParc: A tool to generate protein reference databases for ancient and non-model organismsPreprint

Carrillo-Martin, G., Krueger, J., Marquès‐Bonet, T., & Lizano, E. (2025) · bioRxiv (Cold Spring Harbor Laboratory) · doi:10.1101/2025.07.31.667843

Ancient biomolecules unravel our history. A technical update with examples from the Middle East

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Evolutionary Patterns and Processes: Lessons from Ancient DNA

Leonardi, M., Librado, P., Sarkissian, C. S. I. D., Schubert, M., Alfarhan, A., Alquraishi, S. A., Al‐Rasheid, K. A. S., Gamba, C., Willerslev, E., & Orlando, L. (2016) · Systematic Biology · doi:10.1093/sysbio/syw059 · Cited by 151 · see citing works

Ancient DNA: Results and prospects (The 30th anniversary)

Druzhkova, A. S., Vorobieva, N. V., Trifonov, V. A., & Graphodatsky, A. S. (2015) · Russian Journal of Genetics · doi:10.1134/s1022795415060046 · Cited by 2 · see citing works

Formal methods for evolutionary inference using ancient DNA

Loog, L. (2018) · Oxford University Research Archive (ORA) (University of Oxford) · doi:10.5287/ora-ovnp8jp8m

Starodavna DNA: kratka predstavitev tematike ter njen pomen za razumevanje preteklosti / Ancient DNA: A Short Introduction of the Field and its Influence on our Understanding of the Past

Zagorc, B. (2022) · Zenodo (CERN European Organization for Nuclear Research) · doi:10.5281/zenodo.13778491