The DOI matches its Crossref record; 5 of the 5 references it cites were found in a registry or an index.
Exploring Evolutionary Relationships Across the Genome Using Topology Weighting
Open accessAbstract
We introduce the concept of topology weighting, a method for quantifying relationships between taxa that are not necessarily monophyletic, and visualizing how these relationships change across the genome. A given set of taxa can be related in a limited number of ways, but if each taxon is represented by multiple sequences, the number of possible topologies becomes very large. Topology weighting reduces this complexity by quantifying the contribution of each taxon topology to the full tree. We describe our method for topology weighting by iterative sampling of subtrees (Twisst), and test it on both simulated and real genomic data. Overall, we show that this is an informative and versatile approach, suitable for exploring relationships in almost any genomic dataset. Scripts to implement the method described are available at http://github.com/simonhmartin/twisst.
Overview
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
Verification
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.
Self-check
Percentages, sums and reported differences re-computed from the paper’s own numbers.
The self-check needs the paper’s full text.
Citations
Cites
Guindon, S., Dufayard, J.-F., Lefort, V., Anisimova, M., Hordijk, W., & Gascuel, O. (2010) · Systematic Biology · doi:10.1093/sysbio/syq010 · Cited by 18,376
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
Bayesian inference of species trees from multilocus data
Heled, J., & Drummond, A. J. (2010) · Molecular Biology and Evolution · doi:10.1093/molbev/msp274 · Cited by 2,453
Reconstructing Indian population history
Reich, D., Thangaraj, K., Patterson, N., Price, A. L., & Singh, L. (2009) · Nature · doi:10.1038/nature08365 · Cited by 1,674
Distinct Global Brain Dynamics and Spatiotemporal Organization of the Salience Network
Chen, T., Cai, W., Ryali, S., Supekar, K., & Menon, V. (2016) · PLOS Biology · doi:10.1371/journal.pbio.1002469 · Cited by 480
Cited by
Recombination rate variation shapes barriers to introgression across butterfly genomes
Martin, S. H., Davey, J. W., Salazar, C., & Jiggins, C. D. (2019) · PLOS Biology · doi:10.1371/journal.pbio.2006288 · Cited by 320
Self-citationSomething old, something borrowed: admixture and adaptation in human evolution
Dannemann, M., & Racimo, F. (2018) · Current Opinion in Genetics & Development · doi:10.1016/j.gde.2018.05.009 · Cited by 87
York, R. A., Patil, C., Abdilleh, K., Johnson, Z. V., Conte, M. A., Genner, M. J., McGrath, P. T., Fraser, H. B., Fernald, R. D., & Streelman, J. T. (2018) · Proceedings of the National Academy of Sciences · doi:10.1073/pnas.1810140115 · Cited by 60
Ancestral polymorphisms shape the adaptive radiation of Metrosideros across the Hawaiian Islands
Choi, J. Y., Dai, X., Alam, O., Peng, J. Z., Rughani, P., Hickey, S., Harrington, E., Juul, S., Ayroles, J. F., Purugganan, M. D., et al. (2021) · Proceedings of the National Academy of Sciences · doi:10.1073/pnas.2023801118 · Cited by 58
Re-evaluating Homoploid Reticulate Evolution in Helianthus Sunflowers
Owens, G. L., Huang, K., Todesco, M., & Rieseberg, L. H. (2023) · Molecular Biology and Evolution · doi:10.1093/molbev/msad013 · Cited by 39
Metadata
- Authors
- Martin, S. H., & Van Belleghem, S. M.
- Venue
- Genetics
- Publisher
- Oxford University Press (OUP)
- Published
- 2017-05-01
- Volume
- 206
- Issue
- 1
- Pages
- 429-438
- ISSN
- 0016-6731 (ISSN-L)
- 1943-2631
- OpenAlex
- W2949186289
- Cited by
- 289
- References
- 5
- FWCI
- 5.14
- Type
- journal article
- Language
- en
- Open access
- bronze
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
How to cite
Cite CoChat for the checks on this page, and the paper for its own findings.
- This page
- CoChat. (2026). Citation check: Exploring Evolutionary Relationships Across the Genome Using Topology Weighting. https://app.cochat.ai/papers/10.1534/genetics.116.194720
- The paper
- Martin, S. H., & Van Belleghem, S. M. (2017). Exploring Evolutionary Relationships Across the Genome Using Topology Weighting. Genetics. https://doi.org/10.1534/genetics.116.194720
Data sources
Bibliographic data: Semantic Scholar, OpenAlex, Crossref.
Contains information from the Semantic Scholar Academic Graph Datasets, made available under the ODC Attribution License (ODC-BY 1.0).
Semantic Scholar’s data is described in: Kinney, R., et al. (2023). The Semantic Scholar Open Data Platform. arXiv:2301.10140.
