ArticleProceedings of the National Academy of Sciences of the United States of America2005
A map of the human genome in linkage disequilibrium units.
Article in Proceedings of the National Academy of Sciences of the United States of America, 2005. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 31 papers, 1 of them a synthesis that pooled it.
What it found
Each row is one number read from the abstract, on the scale the paper reported it, with its interval. Left of the dashed line favours the treatment, right favours the comparator. Under each row is the sentence it came from. New to these charts? A ten-minute tutorial.
The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.
The trial behind it
Trials whose registry record cites this paper, or whose number appears in the abstract. A trial that started after this paper was published is citing it as background, not reporting it.
Neither the registry nor the abstract names a trial number. If this is a trial report, that itself is worth knowing.
Who cites it
31 citing papers in PubMed, 1 synthesis or guideline pooled it, 82 citations in OpenAlex.
- Common inherited variation in mitochondrial genes is not enriched for associations with type 2 diabetes or related glycemic traits.PLoS genetics · 2010Pooled it
- Factors influencing blood pressure response to trandolapril add-on therapy in patients taking verapamil SR (from the International Verapamil SR/Trandolapril [INVEST] Study).The American journal of cardiology · 2007Trial
- Genetic analysis of the X chromosome in people with Lewy body dementia nominates new risk loci.NPJ Parkinson's disease · 2024Article
- An unbiased test reveals no enrichment of sexually antagonistic polymorphisms on the human X chromosome.Proceedings. Biological sciences · 2022Article
- Integrated genetic analyses revealed novel human longevity loci and reduced risks of multiple diseases in a cohort study of 15,651 Chinese individuals.Aging cell · 2021Article
- Article
- Linkage disequilibrium maps for European and African populations constructed from whole genome sequence data.Scientific data · 2019Article
- Heterozygosity mapping for human dominant trait variants.Human mutation · 2019Article
- Mapping reduced introgression loci to the X chromosome of the hybridizing field crickets, Gryllus firmus and G. pennsylvanicus.PloS one · 2018Article
- Commercial chicken breeds exhibit highly divergent patterns of linkage disequilibrium.Heredity · 2016Article
- Whole genome sequences are required to fully resolve the linkage disequilibrium structure of human populations.BMC genomics · 2015Article
- Exome-based linkage disequilibrium maps of individual genes: functional clustering and relationship to disease.Human genetics · 2013Article
- Dissecting the genetics of complex inheritance: linkage disequilibrium mapping provides insight into Crohn disease.American journal of human genetics · 2011Article
- hzAnalyzer: detection, quantification, and visualization of contiguous homozygosity in high-density genotyping datasets.Genome biology · 2011Article
- The ratio of human X chromosome to autosome diversity is positively correlated with genetic distance from genes.Nature genetics · 2010Article
- Mammalian recombination hot spots: properties, control and evolution.Nature reviews. Genetics · 2010Review
- Using both cases and controls for testing hardy-weinberg proportions in a genetic association study.Human heredity · 2010Article
- Allelic association: linkage disequilibrium structure and gene mapping.Molecular biotechnology · 2009Review
- Sperm cross-over activity in regions of the human genome showing extreme breakdown of marker association.Proceedings of the National Academy of Sciences of the United States of America · 2008Article
- A test for genetic association that incorporates information about deviation from Hardy-Weinberg proportions in cases.American journal of human genetics · 2008Article
Corrections and comments
PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.
Authors and funding
6 authors at 2 institutions in 1 country.
Funding
No grant is acknowledged in the PubMed record.
Abstract
Two genetic maps with additive distances contribute information about recombination patterns, recombinogenic sequences, and discovery of genes affecting a particular phenotype. Recombination is measured in morgans (w) over a single generation in a linkage map but may cover thousands of generations in a linkage disequilibrium (LD) map measured in LD units (LDU). We used a subset of single nucleotide polymorphisms from the HapMap Project to create a genome-wide map in LDU. Recombination accounts for 96.8% of the LDU variance in chromosome arms and 92.4% in their deciles. However, deeper analysis shows that LDU/w, an estimate of the effective bottleneck time (t), is significantly variable among chromosome arms because (i) the linkage map is approximated from the Haldane function, then adjusted toward the Kosambi function that is more accurate but still exaggerates w for all chromosomes, especially shorter ones; (ii) the non-pseudoautosomal region of the X chromosome is subject to hemizygous selection; and (iii) at resolution less than approximately 40,000 markers per w, there are indeterminacies (holes) in the LD map reflecting intervals of very high recombination. Selection and stochastic variation in small regions must have effects, which remain to be investigated by comparisons among populations. These considerations suggest an optimal strategy to eliminate holes quickly, greatly enhance the resolution of sex-specific linkage maps, and maximize the gain in association mapping by using LD maps.
Indexed as
Identifiers
What OpenQuestion holds
Registered trials
Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.