Student or educator? Sign up with your school email and get 6 months of Pro free.
Cited by 1,349

The DOI matches its Crossref record; 4 of the 4 references it cites were found in a registry or an index.

Accounting for Decay of Linkage Disequilibrium in Haplotype Inference and Missing-Data Imputation

Open access
Stephens, Matthew, Scheet, Paul·2005·The American Journal of Human Genetics

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.

A few free checks a day · papers already verified open instantly · results are public

Integrity signals

Registry

Crossref · 10.1086/428594

Cites

4 of 4 references verified0 citation errors · 0 not checkable

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.

A few free checks a day · papers already verified open instantly · results are public

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

Show all 4 references

Research works printed but not linked: 26

  1. Besag, 1994, Discussion on the paper by Grenander and Miller, J R Stat Soc B, 56, 591
  2. Carlson, 2003, Additional SNPs and linkage-disequilibrium analyses are necessary for whole-genome association studies in humans, Nat Genet, 33, 518, 10.1038/ng1128 · DOI · Paper page
  3. Chapman, 2003, Detecting disease associations due to linkage disequilibrium using haplotype tags: a class of tests and the determinants of statistical power, Hum Hered, 56, 18, 10.1159/000073729 · DOI · Paper page
  4. Crawford, 2004, Evidence for substantial fine-scale variation in recombination rates across the human genome, Nat Genet, 36, 700, 10.1038/ng1376 · DOI · Paper page
  5. Daly, 2001, High-resolution haplotype structure in the human genome, Nat Genet, 29, 229, 10.1038/ng1001-229 · DOI · Paper page
  6. Eskin E, Halperin E, Karp R (2003b) Large scale reconstruction of haplotypes from genotype data. In: Proceedings of the seventh annual international conference on research in computational molecular biology (RECOMB 2003) pp 104–113 · DOI
  7. Excoffier, 2003, Gametic phase estimation over large genomic regions using an adaptive window approach, Hum Genomics, 1, 7, 10.1186/1479-7364-1-1-7 · DOI
  8. Fallin, 2000, Accuracy of haplotype frequency estimation for biallelic loci, via the expectation-maximization algorithm for unphased diploid genotype data, Am J Hum Genet, 67, 947, 10.1086/303069 · DOI · Paper page
  9. Fearnhead, 2001, Estimating recombination rates from population genetic data, Genetics, 159, 1299, 10.1093/genetics/159.3.1299 · DOI · Paper page
  10. Greenspan, 2004, Model-based inference of haplotype block variation, J Comput Biol, 11, 493, 10.1089/1066527041410300 · DOI
  11. Halperin, 2004, Haplotype reconstruction from genotype data using imperfect phylogeny, Bioinformatics, 20, 1842, 10.1093/bioinformatics/bth149 · DOI
  12. Hawley, 1995, HAPLO: a program using the EM algorithm to estimate the frequencies of multi-site haplotypes, J Hered, 86, 409, 10.1093/oxfordjournals.jhered.a111613 · DOI · Paper page
  13. Heckerman, 2000, Dependency networks for inference, collaborative filtering, and data visualization, J Machine Learning Res, 1, 49
  14. Li, 2003, Modelling linkage disequilibrium, and identifying recombination hotspots using SNP data, Genetics, 165, 2213, 10.1093/genetics/165.4.2213 · DOI
  15. Lin, 2004, Haplotype and missing data inference in nuclear families, Genome Res, 14, 1624, 10.1101/gr.2204604 · DOI
  16. Lin, 2002, Haplotype inference in random population samples, Am J Hum Genet, 71, 1129, 10.1086/344347 · DOI
  17. Long, 1995, An E-M algorithm and testing strategy for multiple locus haplotypes, Am J Hum Genet, 56, 799
  18. McVean, 2004, The fine-scale structure of recombination rate variation in the human genome, Science, 304, 581, 10.1126/science.1092500 · DOI · Paper page
  19. Niu, 2002, Bayesian haplotype inference for multiple linked single-nucleotide polymorphisms, Am J Hum Genet, 70, 157, 10.1086/338446 · DOI
  20. Ptak, 2004, Absence of the TAP2 human recombination hotspot in chimpanzees, PLoS Biol, 2, 849, 10.1371/journal.pbio.0020155 · DOI
  21. Qin, 2002, Partial-ligation-expectation-maximization algorithm for haplotype inference with single-nucleotide polymorphisms, Am J Hum Genet, 71, 1242, 10.1086/344207 · DOI · Paper page
  22. Rabiner, 1989, A tutorial on hidden Markov models and selected applications in speech recognition, Proc IEEE, 77, 257, 10.1109/5.18626 · DOI · Paper page
  23. Schaffner, 2004, The X chromosome in population genetics, Nat Rev Genet, 5, 43, 10.1038/nrg1247 · DOI
  24. Stephens, 2000, Inference in molecular population genetics, J R Stat Soc Ser B, 62, 605, 10.1111/1467-9868.00254 · DOI
  25. Stephens, 2003, A comparison of Bayesian methods for haplotype reconstruction from population genotype data, Am J Hum Genet, 73, 1162, 10.1086/379378 · DOI
  26. Stephens, 2001, A new statistical method for haplotype reconstruction from population data, Am J Hum Genet, 68, 978, 10.1086/319501 · DOI

Cited by

See all 1,349

Metadata

Authors
Stephens, M., & Scheet, P.
Venue
The American Journal of Human Genetics
Publisher
Elsevier BV
Published
2005-03
Volume
76
Issue
3
Pages
449-462
ISSN
0002-9297 (ISSN-L)
OpenAlex
W2031082289
Cited by
1,349
References
4
FWCI
29.91
Type
journal article
Language
en
Open access
bronze
Licence

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: Accounting for Decay of Linkage Disequilibrium in Haplotype Inference and Missing-Data Imputation. https://app.cochat.ai/papers/10.1086/428594
The paper
Stephens, M., & Scheet, P. (2005). Accounting for Decay of Linkage Disequilibrium in Haplotype Inference and Missing-Data Imputation. The American Journal of Human Genetics. https://doi.org/10.1086/428594

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.