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Linkage disequilibrium between single nucleotide polymorphisms and hypermutable loci

https://doi.org/10.1101/020909

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What this work says

Outgoing claims: the papers this work cites, builds on, or argues with.

inferredcites →https://doi.org/10.1007/bf01245622openalex-snapshot

Linkage disequilibrium in finite populations

inferredcites →https://doi.org/10.1007/s00401-014-1250-xopenalex-snapshot

Searching for Grendel: origin and global spread of the C9ORF72 repeat expansion

inferredcites →https://doi.org/10.1016/0092-8674(91)90397-hopenalex-snapshot

Identification of a gene (FMR-1) containing a CGG repeat coincident with a breakpoint cluster region exhibiting length variation in fragile X syndrome

inferredcites →https://doi.org/10.1016/0092-8674(93)90585-eopenalex-snapshot

A novel gene containing a trinucleotide repeat that is expanded and unstable on Huntington's disease chromosomes

inferredcites →https://doi.org/10.1016/j.ajhg.2008.02.018openalex-snapshot

Linkage Disequilibrium between STRPs and SNPs across the Human Genome

inferredcites →https://doi.org/10.1016/j.ajhg.2010.11.011openalex-snapshot

GCTA: A Tool for Genome-wide Complex Trait Analysis

inferredcites →https://doi.org/10.1016/j.biopsych.2009.04.030openalex-snapshot

Accurate, Large-Scale Genotyping of 5HTTLPR and Flanking Single Nucleotide Polymorphisms in an Association Study of Depression, Anxiety, and Personality Measures

inferredcites →https://doi.org/10.1016/j.cell.2007.01.023openalex-snapshot

Timescales of Genetic and Epigenetic Inheritance

inferredcites →https://doi.org/10.1016/j.neurobiolaging.2011.08.005openalex-snapshot

The chromosome 9 ALS and FTD locus is probably derived from a single founder

inferredcites →https://doi.org/10.1016/j.neuron.2011.09.011openalex-snapshot

Expanded GGGGCC Hexanucleotide Repeat in Noncoding Region of C9ORF72 Causes Chromosome 9p-Linked FTD and ALS

inferredcites →https://doi.org/10.1016/j.tig.2009.11.008openalex-snapshot

Tandem repeat polymorphisms: modulators of disease susceptibility and candidates for ‘missing heritability’

inferredcites →https://doi.org/10.1016/j.tig.2014.07.008openalex-snapshot

The overdue promise of short tandem repeat variation for heritability

inferredcites →https://doi.org/10.1016/j.tpb.2008.05.006openalex-snapshot

Mathematical properties of the r2 measure of linkage disequilibrium.

inferredcites →https://doi.org/10.1016/s1474-4422(10)70184-8openalex-snapshot

Chromosome 9p21 in amyotrophic lateral sclerosis in Finland: a genome-wide association study

inferredcites →https://doi.org/10.1016/s1474-4422(12)70043-1openalex-snapshot

Frequency of the C9orf72 hexanucleotide repeat expansion in patients with amyotrophic lateral sclerosis and frontotemporal dementia: a cross-sectional study

inferredcites →https://doi.org/10.1038/456018aopenalex-snapshot

Personal genomes: The case of the missing heritability

inferredcites →https://doi.org/10.1038/74238openalex-snapshot

The direction of microsatellite mutations is dependent upon allele length

inferredcites →https://doi.org/10.1038/nature08494openalex-snapshot

Finding the missing heritability of complex diseases

inferredcites →https://doi.org/10.1038/ng.2398openalex-snapshot

A direct characterization of human mutation based on microsatellites

inferredcites →https://doi.org/10.1038/nrg1348openalex-snapshot

Microsatellites: simple sequences with complex evolution

inferredcites →https://doi.org/10.1038/nrg3117openalex-snapshot

Repetitive DNA and next-generation sequencing: computational challenges and solutions

inferredcites →https://doi.org/10.1038/nrg3786openalex-snapshot

The contribution of genetic variants to disease depends on the ruler

inferredcites →https://doi.org/10.1093/bioinformatics/btr124openalex-snapshot

fastsimcoal: a continuous-time coalescent simulator of genomic diversity under arbitrarily complex evolutionary scenarios

inferredcites →https://doi.org/10.1093/bioinformatics/btt647openalex-snapshot

Rapid detection of expanded short tandem repeats in personal genomics using hybrid sequencing

inferredcites →https://doi.org/10.1093/bioinformatics/btu437openalex-snapshot

Resolving complex tandem repeats with long reads

inferredcites →https://doi.org/10.1093/emboj/17.14.4147openalex-snapshot

Repeat instability at human minisatellites arising from meiotic recombination

inferredcites →https://doi.org/10.1093/gbe/evq007openalex-snapshot

Conservation of Human Microsatellites across 450 Million Years of Evolution

inferredcites →https://doi.org/10.1093/genetics/117.2.331openalex-snapshot

Gametic Disequilibrium Measures: Proceed With Caution

inferredcites →https://doi.org/10.1093/genetics/164.2.781openalex-snapshot

Likelihood-Based Estimation of Microsatellite Mutation Rates

inferredcites →https://doi.org/10.1093/genetics/63.1.229openalex-snapshot

LINKAGE DISEQUILIBRIUM AT STEADY STATE DETERMINED BY RANDOM GENETIC DRIFT AND RECURRENT MUTATION

inferredcites →https://doi.org/10.1093/molbev/msp052openalex-snapshot

A Genomewide Comparison of Population Structure at STRPs and Nearby SNPs in Humans

inferredcites →https://doi.org/10.1101/gr.135780.111openalex-snapshot

lobSTR: A short tandem repeat profiler for personal genomes

inferredcites →https://doi.org/10.1101/gr.141705.112openalex-snapshot

Sequencing the unsequenceable: Expanded CGG-repeat alleles of the fragile X gene

inferredcites →https://doi.org/10.1101/gr.177774.114openalex-snapshot

The landscape of human STR variation

inferredcites →https://doi.org/10.1101/gr.182212.114openalex-snapshot

MIPSTR: a method for multiplex genotyping of germline and somatic STR variation across many individuals

inferredcites →https://doi.org/10.1101/gr.6554007openalex-snapshot

Sequence-based estimation of minisatellite and microsatellite repeat variability

inferredcites →https://doi.org/10.1101/gr.7113408openalex-snapshot

The genome-wide determinants of human and chimpanzee microsatellite evolution

inferredcites →https://doi.org/10.1111/jcpp.12295openalex-snapshot

Research Review: Polygenic methods and their application to psychiatric traits

inferredcites →https://doi.org/10.1126/science.1170097openalex-snapshot

Unstable Tandem Repeats in Promoters Confer Transcriptional Evolvability

inferredcites →https://doi.org/10.1126/science.274.5292.1527openalex-snapshot

Association of Anxiety-Related Traits with a Polymorphism in the Serotonin Transporter Gene Regulatory Region

inferredcites →https://doi.org/10.1146/annurev-genet-072610-155046openalex-snapshot

Variable Tandem Repeats Accelerate Evolution of Coding and Regulatory Sequences

inferredcites →https://doi.org/10.1186/1753-6561-5-s9-s88openalex-snapshot

Capability of common SNPs to tag rare variants

inferredcites →https://doi.org/10.1371/journal.pgen.0030170openalex-snapshot

Power to Detect Risk Alleles Using Genome-Wide Tag SNP Panels

inferredcites →https://doi.org/10.1371/journal.pgen.1004418openalex-snapshot

Digital Genotyping of Macrosatellites and Multicopy Genes Reveals Novel Biological Functions Associated with Copy Number Variation of Large Tandem Repeats

inferredcites →https://doi.org/10.1371/journal.pone.0054710openalex-snapshot

Microsatellite Tandem Repeats Are Abundant in Human Promoters and Are Associated with Regulatory Elements

inferredcites →https://doi.org/10.1375/1832427053738827openalex-snapshot

Allele Frequencies and the r2 Measure of Linkage Disequilibrium: Impact on Design and Interpretation of Association Studies

inferredcites →https://doi.org/10.1375/twin.8.2.87openalex-snapshot

Allele Frequencies and ther2Measure of Linkage Disequilibrium: Impact on Design and Interpretation of Association Studies

inferredcites →https://doi.org/10.1534/g3.112.005173openalex-snapshot

Mature Microsatellites: Mechanisms Underlying Dinucleotide Microsatellite Mutational Biases in Human Cells

inferredcites →https://doi.org/10.1534/g3.115.017277openalex-snapshot

Long-Read Single Molecule Sequencing to Resolve Tandem Gene Copies: The Mst77Y Region on the Drosophila melanogaster Y Chromosome

What points at this work

Incoming claims: where this work appears in other papers’ reference lists and arguments.

inferred← citeshttps://doi.org/10.1016/j.tig.2019.01.002openalex-snapshot

Substitutions Are Boring: Some Arguments about Parallel Mutations and High Mutation Rates

inferred← citeshttps://doi.org/10.1038/ng.3461openalex-snapshot

Abundant contribution of short tandem repeats to gene expression variation in humans

inferred← citeshttps://doi.org/10.1101/145128openalex-snapshot

Massive variation of short tandem repeats with functional consequences across strains of Arabidopsis thaliana

inferred← citeshttps://doi.org/10.1101/gr.231753.117openalex-snapshot

Massive variation of short tandem repeats with functional consequences across strains of Arabidopsis thaliana

inferred← citeshttps://doi.org/10.1534/g3.116.031880openalex-snapshot

Variation and Evolution in the Glutamine-Rich Repeat Region of Drosophila Argonaute-2

inferred← citeshttps://doi.org/10.31219/osf.io/5typzopenalex-snapshot

Substitutions are boring: some arguments about parallel mutations and repetitive DNA

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