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rAmpSeq: Using repetitive sequences for robust genotyping

https://doi.org/10.1101/096628
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What this work says

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

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The MITE family Heartbreaker ( Hbr ): Molecular markers in maize
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TASSEL: software for association mapping of complex traits in diverse samples
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The Sequence Alignment/Map format and SAMtools
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BEDTools: a flexible suite of utilities for comparing genomic features
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The Evolution of Ribosomal DNA Divergent Paralogues and Phylogenetic Implications
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Primer3—new capabilities and interfaces
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Ensembl Genomes 2016: more genomes, more complexity
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The Pfam protein families database: towards a more sustainable future
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Zea systematics: ribosomal ITS evidence
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Sequence analysis of the ribosomal DNA internal transcribed spacer 2 from populations of Anopheles nuneztovari (Diptera: Culicidae).
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Transposon signatures: species‐specific molecular markers that utilize a class of multiple‐copy nuclear DNA
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Genetic Properties of the Maize Nested Association Mapping Population
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A First-Generation Haplotype Map of Maize
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Development and validation of a T7 based linear amplification for genomic DNA
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Exceptional Diversity, Non-Random Distribution, and Rapid Evolution of Retroelements in the B73 Maize Genome
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Switchgrass Genomic Diversity, Ploidy, and Evolution: Novel Insights from a Network-Based SNP Discovery Protocol
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A Robust, Simple Genotyping-by-Sequencing (GBS) Approach for High Diversity Species
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TASSEL-GBS: A High Capacity Genotyping by Sequencing Analysis Pipeline
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Genetic diversity at class II DRB loci of the primate MHC
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Aligning sequence reads, clone sequences and assembly con*gs with BWA-MEM

What points at this work

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

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Genomic prediction of the performance of tropical doubled haploid maize lines under artificial Striga hermonthica (Del.) Benth. infestation
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Utilization of molecular markers for improving the phosphorus efficiency in crop plants
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Novel Bayesian networks for genomic prediction of developmental traits in biomass sorghum
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Tracking the adoption of bread wheat varieties in Afghanistan using DNA fingerprinting
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K-seq, an affordable, reliable, and open Klenow NGS-based genotyping technology
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Novel Bayesian Networks for Genomic Prediction of Developmental Traits in Biomass Sorghum
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Genomic Tools for the Enhancement of Vegetable Crops: A Case in Eggplant
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Effect of Trait Heritability, Training Population Size and Marker Density on Genomic Prediction Accuracy Estimation in 22 bi-parental Tropical Maize Populations
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Empirical Comparison of Tropical Maize Hybrids Selected Through Genomic and Phenotypic Selections
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Scalable Sparse Testing Genomic Selection Strategy for Early Yield Testing Stage
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NGS-Based Genotyping, High-Throughput Phenotyping and Genome-Wide Association Studies Laid the Foundations for Next-Generation Breeding in Horticultural Crops
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The Potential of HTS Approaches for Accurate Genotyping in Grapevine (Vitis vinifera L.)
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Mining and Development of Novel SSR Markers Using Next Generation Sequencing (NGS) Data in Plants
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