Reply to ‘No evidence for unknown archaic ancestry in South Asia’
Open accessPublished version of a preprint
The claims and statistics of this paper haven’t been checked yet.
Run the check — free, no account needed. It reads the open-access text and checks the sources it cites.
Integrity signals
Registry
Cites
Statistics
Claims the paper makes
The claims and statistics of this paper haven’t been checked yet.
Run the check — free, no account needed. It reads the open-access text and checks the sources it cites.
Claims other papers make about this one
Each is checked against this paper’s own text: does it say what the citing paper says it does?
Evidence for super-archaic introgression into the ancestors of the Altai Denisovans and, possibly, Andamanese populations suggests that viable reproduction between super-archaic hominins and more derived hominins may have been possible.
“Evidence for super-archaic introgression into the ancestors of the Altai Denisovans 30 and, possibly, Andamanese populations 31-33 , suggests that viable reproduction may actually have been possible, though further evaluation of these hypotheses at present is not possible given the available data.”
From Widespread Denisovan ancestry in Island Southeast Asia but no evidence of substantial super-archaic hominin admixture (2021) · cites this paper as [33]
Self-check
Percentages, sums and reported differences re-computed from the paper’s own numbers.
The self-check needs the paper’s full text.
Cites
Part of this paper’s reference list could not be split into single entries.
The Sequence Alignment/Map format and SAMtools
Li, H., Handsaker, B., Wysoker, A., Fennell, T., Ruan, J., Homer, N., Marth, G., Abecasis, G., Durbin, R., & 1000 Genome Project Data Processing Subgroup (2009) · Bioinformatics · doi:10.1093/bioinformatics/btp352 · Cited by 62,041 · see citing works
PLINK: a tool set for whole-genome association and population-based linkage analyses.
Purcell, S., Neale, B., Todd-Brown, K., Thomas, L., Ferreira, M. A. R., Bender, D., Maller, J., Sklar, P., de Bakker, P. I. W., Daly, M. J., et al. (2007) · The American Journal of Human Genetics · doi:10.1086/519795 · Cited by 34,089 · see citing works
The Genome Analysis Toolkit: A MapReduce framework for analyzing next-generation DNA sequencing data
McKenna, A., Hanna, M., Banks, E., Sivachenko, A., Cibulskis, K., Kernytsky, A., Garimella, K., Altshuler, D., Gabriel, S., Daly, M., et al. (2010) · Genome Research · doi:10.1101/gr.107524.110 · Cited by 27,895 · see citing works
A global reference for human genetic variation
The 1000 Genomes Project Consortium, authors, C., Auton, A., Abecasis, G. R., Steering committee, Altshuler, D. M., Durbin, R. M., Abecasis, G. R., Bentley, D. R., Chakravarti, A., et al. (2015) · Nature · doi:10.1038/nature15393 · Cited by 18,247 · see citing works
An integrated map of genetic variation from 1,092 human genomes
The 1000 Genomes Project Consortium (2012) · Nature · doi:10.1038/nature11632 · Cited by 7,711 · 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
Ancient Admixture in Human History
Patterson, N., Moorjani, P., Luo, Y., Mallick, S., Rohland, N., Zhan, Y., Genschoreck, T., Webster, T., & Reich, D. (2012) · Genetics · doi:10.1534/genetics.112.145037 · Cited by 2,848 · see citing works
Generating samples under a Wright–Fisher neutral model of genetic variation
Hudson, R. R. (2002) · Bioinformatics · doi:10.1093/bioinformatics/18.2.337 · Cited by 2,397 · see citing works
A high-coverage genome sequence from an archaic denisovan individual
Meyer, M., Kircher, M., Gansauge, M.-T., Li, H., Racimo, F., Mallick, S., Schraiber, J. G., Jay, F., Prüfer, K., de Filippo, C., et al. (2012) · Science · doi:10.1126/science.1224344 · Cited by 1,967 · see citing works
The Simons Genome Diversity Project: 300 genomes from 142 diverse populations
Mallick, S., Li, H., Lipson, M., Mathieson, I., Gymrek, M., Racimo, F., Zhao, M., Chennagiri, N., Nordenfelt, S., Tandon, A., et al. (2016) · Nature · doi:10.1038/nature18964 · Cited by 1,584 · see citing works
A high-coverage Neandertal genome from Vindija Cave in Croatia
Prüfer, K., de Filippo, C., Grote, S., Mafessoni, F., Korlević, P., Hajdinjak, M., Vernot, B., Skov, L., Hsieh, P., Peyrégne, S., et al. (2017) · Science · doi:10.1126/science.aao1887 · Cited by 719 · see citing works
A genomic history of Aboriginal Australia
Malaspinas, A.-S., Westaway, M. C., Muller, C., Sousa, V. C., Lao, O., Alves, I., Bergström, A., Athanasiadis, G., Cheng, J. Y., Crawford, J. E., et al. (2016) · Nature · doi:10.1038/nature18299 · Cited by 650 · see citing works
Resurrecting Surviving Neandertal Lineages from Modern Human Genomes
Vernot, B., & Akey, J. M. (2014) · Science · doi:10.1126/science.1245938 · Cited by 562 · see citing works
A comprehensive assessment of somatic mutation detection in cancer using whole-genome sequencing
Alioto, T., Buchhalter, I., Derdak, S. V., Hutter, B., Eldridge, M., Hovig, E. J., Heisler, L. E., Beck, T. A., Simpson, J. T., Tonon, L., et al. (2015) · Nature Communications · doi:10.1038/ncomms10001 · Cited by 304 · see citing works
Ancestral Origins and Genetic History of Tibetan Highlanders
Lu, D., Lou, H., Yuan, K., Wang, X., Wang, Y., Zhang, C., Lü, Y., Yang, X. W., Deng, L., Zhou, Y., et al. (2016) · The American Journal of Human Genetics · doi:10.1016/j.ajhg.2016.07.002 · Cited by 272 · see citing works
Mondal, M., Casals, F., Xu, T., Dall'Olio, G. M., Pybus, M., Netea, M. G., Comas, D., Laayouni, H., Li, Q., Majumder, P. P., et al. (2016) · Nature Genetics · doi:10.1038/ng.3621 · Cited by 149 · see citing works
Self-citationNo evidence for unknown archaic ancestry in South Asia
Skoglund, P., Mallick, S., Patterson, N., & Reich, D. (2018) · Nature Genetics · doi:10.1038/s41588-018-0097-9 · Cited by 8 · see citing works
No evidence for unknown archaic ancestry in South AsiaPreprint
Skoglund, P., Mallick, S., Patterson, N. J., et al. (2016) · bioRxiv (Cold Spring Harbor Laboratory) · doi:10.1101/068155 · Cited by 2 · see citing works
Flagged first, then by citations
Cited by
Sorted by citations
Human occupation of northern India spans the Toba super-eruption ~74,000 years ago
Clarkson, C., Harris, C., Li, B., Neudorf, C. M., Roberts, R. G., Lane, C. S., Norman, K., Pal, J., Jones, S., Shipton, C., et al. (2020) · Nature Communications · doi:10.1038/s41467-020-14668-4 · Cited by 97 · see citing works
Teixeira, J. C., Jacobs, G. S., Stringer, C., Tuke, J., Hudjashov, G., Purnomo, G. A., Sudoyo, H., Cox, M. P., Tobler, R., Turney, C. S. M., et al. (2021) · Nature Ecology & Evolution · doi:10.1038/s41559-021-01408-0 · Cited by 51 · see citing works
Bergey, C. M., Lopez, M., Harrison, G. F., Patin, E., Cohen, J. A., Quintana-Murci, L., Barreiro, L. B., & Perry, G. (2018) · Proceedings of the National Academy of Sciences of the United States of America · doi:10.1073/pnas.1812135115 · Cited by 46 · see citing works
The genetic makings of South Asia
Metspalu, M., Mondal, M., & Chaubey, G. (2018) · Current Opinion in Genetics & Development · doi:10.1016/j.gde.2018.09.003 · Cited by 29 · see citing works
Self-citationRevisiting the out of Africa event with a deep-learning approach
Montinaro, F., Pankratov, V., Yelmen, B., Pagani, L., & Mondal, M. (2021) · The American Journal of Human Genetics · doi:10.1016/j.ajhg.2021.09.006 · Cited by 11 · see citing works
Self-citationIntrogression, hominin dispersal and megafaunal survival in Late Pleistocene Island Southeast AsiaPreprint
Teixeira, J. C., Jacobs, G. S., Stringer, C. B., Tuke, J., Hudjashov, G., Purnomo, G. A., Sudoyo, H., Cox, M. P., Tobler, R., TURNEY, C. S. M., et al. (2020) · bioRxiv (Cold Spring Harbor Laboratory) · doi:10.1101/2020.07.24.219048
Lopez, M. (2018) · theses.fr (ABES) · doi:10.70675/df71047dz87f5z482cz96b0zf7bc6df59e0f
Desai, S., Adhikary, V., Bhattacharyya, M., Tharu, M. K., Sharma, A., Sequeira, J. J., Pandey, R. K., Pandey, P. S., Shendre, S. S., Tayyeh, A. M., et al. (2026) · bioRxiv (Cold Spring Harbor Laboratory) · doi:10.64898/2026.04.29.721543 · Cited by 2 · see citing works
- Authors
- Mondal, M., Casals, F., Majumder, P. P., & Bertranpetit, J.
- Affiliations
- University of Tartu (EE)
- National Institute of Biomedical Genomics (IN)
- Universitat Pompeu Fabra (ES)
- Corresponding author
- Mondal, Mayukh
- Venue
- Nature Genetics
- Published
- 2018-11-26
- Volume
- 50
- Issue
- 12
- Pages
- 1637-1639
- ISSN
- 1061-4036 (ISSN-L)
- 1546-1718
- OpenAlex
- W2900852644
- Cited by
- 8
- References
- 17
- Citations by year
- 2026: 1 · 2021: 3 · 2020: 1 · 2018: 3
- Type
- journal article
- Language
- en
- Open access
- green
- doi.org
- Licence
- cc-by-nc-nd
- www.springer.com/tdm (tdm)
- Locations
- Nature Genetics (publishedVersion)
- bioRxiv (Cold Spring Harbor Laboratory) (acceptedVersion, cc-by-nc-nd)
- PubMed (publishedVersion)
- Repositori digital de la UPF (Universitat Pompeu Fabra) (acceptedVersion, cc-by-nc)
- RECERCAT (Consorci de Serveis Universitaris de Catalunya) (submittedVersion, cc-by-nc)
- Topics
- Life Sciences › Biochemistry, Genetics and Molecular Biology › Genetics › Forensic and Genetic Research
- Social Sciences › Anthropology › Pleistocene-Era Hominins and Archaeology
- Life Sciences › Biochemistry, Genetics and Molecular Biology › Genetics › Genetic diversity and population structure
- Keywords
- archaic admixture, Andamanese, South Asian populations, whole genome sequencing, human ancestry, Denisovans, Neanderthals
- MeSH terms
- Asia, Genetics, Population, Humans, Genomics, Asian People, Human Migration
About these checks
Registry, retraction, Cites and statistics results are computed, not judged, with one exception: a printed reference that no index lists is read once by a model before it counts as a citation error. Claims are extracted by a model and kept only when their quote appears verbatim in the text; each cited source is then checked, with a model’s help, for whether it says what the claim relies on. Those verdicts can be wrong — read the claim’s quote and the cited source before relying on one.
Statistics and arithmetic are recomputed, not judged.
Confidence bands are shown only for fields calibrated on our annotated test set. None is calibrated yet, so no band is shown.
What counts as a claim ›How we measure confidence ›How we check this ›
Are you an author, or do you see a problem with this page? Request a review