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

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What this work says

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

inferredcites →https://doi.org/10.1002/mc.20499openalex-snapshot

Every microsatellite is different: Intrinsic DNA features dictate mutagenesis of common microsatellites present in the human genome

inferredcites →https://doi.org/10.1016/0092-8674(93)90290-7openalex-snapshot

Cytoplasmic regulation of mRNA function: The importance of the 3′ untranslated region

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.2016.04.001openalex-snapshot

Population-Scale Sequencing Data Enable Precise Estimates of Y-STR Mutation Rates

inferredcites →https://doi.org/10.1016/j.cell.2016.05.063openalex-snapshot

1,135 Genomes Reveal the Global Pattern of Polymorphism in Arabidopsis thaliana

inferredcites →https://doi.org/10.1016/j.cell.2016.06.044openalex-snapshot

Epigenomic Diversity in a Global Collection of Arabidopsis thaliana Accessions

inferredcites →https://doi.org/10.1016/j.celrep.2014.08.019openalex-snapshot

Mapping and Dynamics of Regulatory DNA and Transcription Factor Networks in A. thaliana

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.tins.2008.03.006openalex-snapshot

Simple sequence repeats: genetic modulators of brain function and behavior

inferredcites →https://doi.org/10.1016/s0959-437x(02)00297-6openalex-snapshot

Dominantly inherited, non-coding microsatellite expansion disorders

inferredcites →https://doi.org/10.1016/s0960-9822(00)00005-1openalex-snapshot

Adaptive evolution of highly mutable loci in pathogenic bacteria

inferredcites →https://doi.org/10.1017/s0016672300024150openalex-snapshot

The rate of polygenic mutation

inferredcites →https://doi.org/10.1038/nature08250openalex-snapshot

Targeted capture and massively parallel sequencing of 12 human exomes

inferredcites →https://doi.org/10.1038/nature08800openalex-snapshot

Genome-wide association study of 107 phenotypes in Arabidopsis thaliana inbred lines

inferredcites →https://doi.org/10.1038/nature10414openalex-snapshot

Multiple reference genomes and transcriptomes for Arabidopsis thaliana

inferredcites →https://doi.org/10.1038/nature11396openalex-snapshot

Rate of de novo mutations and the importance of father’s age to disease risk

inferredcites →https://doi.org/10.1038/nature13439openalex-snapshot

The long-term maintenance of a resistance polymorphism through diffuse interactions

inferredcites →https://doi.org/10.1038/ng.1042openalex-snapshot

Genome-wide patterns of genetic variation in worldwide Arabidopsis thaliana accessions from the RegMap panel

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

A direct characterization of human mutation based on microsatellites

inferredcites →https://doi.org/10.1038/ng.2418openalex-snapshot

Estimating the human mutation rate using autozygosity in a founder population

inferredcites →https://doi.org/10.1038/ng.3461openalex-snapshot

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

inferredcites →https://doi.org/10.1038/ng.3952openalex-snapshot

Interpreting short tandem repeat variations in humans using mutational constraint

inferredcites →https://doi.org/10.1038/ng.608openalex-snapshot

Common SNPs explain a large proportion of the heritability for human height

inferredcites →https://doi.org/10.1038/nmeth.4267openalex-snapshot

Genome-wide profiling of heritable and de novo STR variations

inferredcites →https://doi.org/10.1073/pnas.012608599openalex-snapshot

Amino acid runs in eukaryotic proteomes and disease associations

inferredcites →https://doi.org/10.1073/pnas.0812043106openalex-snapshot

Evolution of F-box genes in plants: Different modes of sequence divergence and their relationships with functional diversification

inferredcites →https://doi.org/10.1073/pnas.1211021109openalex-snapshot

Background-dependent effects of polyglutamine variation in the Arabidopsis thaliana gene ELF3

inferredcites →https://doi.org/10.1073/pnas.172203599openalex-snapshot

Signature of balancing selection in Arabidopsis

inferredcites →https://doi.org/10.1093/bioinformatics/bts163openalex-snapshot

Matrix eQTL: ultra fast eQTL analysis via large matrix operations

inferredcites →https://doi.org/10.1093/bioinformatics/btu353openalex-snapshot

MIPgen: optimized modeling and design of molecular inversion probes for targeted resequencing

inferredcites →https://doi.org/10.1093/biomet/76.2.297openalex-snapshot

Regression and Time Series Model Selection in Small Samples

inferredcites →https://doi.org/10.1093/gbe/evs050openalex-snapshot

Measuring Microsatellite Conservation in Mammalian Evolution with a Phylogenetic Birth–Death Model

inferredcites →https://doi.org/10.1093/molbev/msh073openalex-snapshot

Microsatellites Within Genes: Structure, Function, and Evolution

inferredcites →https://doi.org/10.1093/molbev/msm129openalex-snapshot

Evolutionary Analysis of Amino Acid Repeats across the Genomes of 12 Drosophila Species

inferredcites →https://doi.org/10.1093/molbev/msq164openalex-snapshot

The Number of Alleles at a Microsatellite Defines the Allele Frequency Spectrum and Facilitates Fast Accurate Estimation of

inferredcites →https://doi.org/10.1093/molbev/msq198openalex-snapshot

A Genomic Portrait of Human Microsatellite Variation

inferredcites →https://doi.org/10.1093/molbev/mss247openalex-snapshot

Microsatellites as Targets of Natural Selection

inferredcites →https://doi.org/10.1093/nar/27.2.573openalex-snapshot

Tandem repeats finder: a program to analyze DNA sequences

inferredcites →https://doi.org/10.1093/nar/gks981openalex-snapshot

Accurate human microsatellite genotypes from high-throughput resequencing data using informed error profiles

inferredcites →https://doi.org/10.1098/rspb.2003.2662openalex-snapshot

Allele excess at neutrally evolving microsatellites and the implications for tests of neutrality

inferredcites →https://doi.org/10.1101/020909openalex-snapshot

Linkage disequilibrium between single nucleotide polymorphisms and hypermutable loci

inferredcites →https://doi.org/10.1101/104323openalex-snapshot

Regulatory DNA in A . thaliana can tolerate high levels of sequence divergence

inferredcites →https://doi.org/10.1101/gr.070409.107openalex-snapshot

The biological effects of simple tandem repeats: Lessons from the repeat expansion diseases: Table 1.

inferredcites →https://doi.org/10.1101/gr.101261.109openalex-snapshot

Natural selection drives the accumulation of amino acid tandem repeats in human proteins

inferredcites →https://doi.org/10.1101/gr.147686.112openalex-snapshot

Single molecule molecular inversion probes for targeted, high-accuracy detection of low-frequency 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/10.1105/tpc.107.054833openalex-snapshot

BIN4, a Novel Component of the Plant DNA Topoisomerase VI Complex, Is Required for Endoreduplication in Arabidopsis

inferredcites →https://doi.org/10.1105/tpc.114.134262openalex-snapshot

Recruitment of PLANT U-BOX13 and the PI4Kβ1/β2 Phosphatidylinositol-4 Kinases by the Small GTPase RabA4B Plays Important Roles during Salicylic Acid-Mediated Plant Defense Signaling in Arabidopsis

inferredcites →https://doi.org/10.1111/j.1749-6632.2012.06615.xopenalex-snapshot

Indirect selection of implicit mutation protocols

inferredcites →https://doi.org/10.1111/tpj.13415openalex-snapshot

Araport11: a complete reannotation of the Arabidopsis thaliana reference genome

inferredcites →https://doi.org/10.1126/science.1086391openalex-snapshot

Genome-Wide Insertional Mutagenesis of Arabidopsis thaliana

inferredcites →https://doi.org/10.1126/science.1138632openalex-snapshot

Common Sequence Polymorphisms Shaping Genetic Diversity in Arabidopsis thaliana

inferredcites →https://doi.org/10.1126/science.1164014openalex-snapshot

A Genetic Defect Caused by a Triplet Repeat Expansion in Arabidopsis thaliana

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

Unstable Tandem Repeats in Promoters Confer Transcriptional Evolvability

inferredcites →https://doi.org/10.1126/scitranslmed.aal5209openalex-snapshot

Improving genetic diagnosis in Mendelian disease with transcriptome sequencing

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/s13059-016-1110-1openalex-snapshot

New insights into the generation and role of de novo mutations in health and disease

inferredcites →https://doi.org/10.1186/s13059-016-1118-6openalex-snapshot

Human splicing diversity and the extent of unannotated splice junctions across human RNA-seq samples on the Sequence Read Archive

inferredcites →https://doi.org/10.1371/journal.pbio.0030196openalex-snapshot

The Pattern of Polymorphism in Arabidopsis thaliana

inferredcites →https://doi.org/10.1371/journal.pgen.0010041openalex-snapshot

Positive Selection of a Pre-Expansion CAG Repeat of the Human SCA2 Gene

inferredcites →https://doi.org/10.1371/journal.pgen.1004842openalex-snapshot

Natural CMT2 Variation Is Associated With Genome-Wide Methylation Changes and Temperature Seasonality

inferredcites →https://doi.org/10.1371/journal.pgen.1006489openalex-snapshot

Mutation Rate Variation is a Primary Determinant of the Distribution of Allele Frequencies in Humans

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/10.1534/genetics.108.089409openalex-snapshot

Correlation-Based Inference for Linkage Disequilibrium With Multiple Alleles

inferredcites →https://doi.org/10.1534/genetics.114.167866openalex-snapshot

The Conserved PFT1 Tandem Repeat Is Crucial for Proper Flowering in Arabidopsis thaliana

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

inferred← citeshttps://doi.org/10.1186/s40246-018-0181-3openalex-snapshot

Link between short tandem repeats and translation initiation site selection

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