| # | Title | Journal | Year | Citations |
|---|
| 1 | Stacks: Building and Genotyping Loci De Novo From Short-Read Sequences | G3: Genes, Genomes, Genetics | 2011 | 1,643 |
| 2 | BlobToolKit – Interactive Quality Assessment of Genome Assemblies | G3: Genes, Genomes, Genetics | 2020 | 883 |
| 3 | Genotype Imputation with Thousands of Genomes | G3: Genes, Genomes, Genetics | 2011 | 869 |
| 4 | Shrinkage Estimation of the Realized Relationship Matrix | G3: Genes, Genomes, Genetics | 2012 | 420 |
| 5 | Evaluation and Design of Genome-Wide CRISPR/SpCas9 Knockout Screens | G3: Genes, Genomes, Genetics | 2017 | 417 |
| 6 | LinkImpute: Fast and Accurate Genotype Imputation for Nonmodel Organisms | G3: Genes, Genomes, Genetics | 2015 | 407 |
| 7 | RNA-Guided Genome Editing for Target Gene Mutations in Wheat | G3: Genes, Genomes, Genetics | 2013 | 385 |
| 8 | The Reference Genome Sequence ofSaccharomyces cerevisiae: Then and Now | G3: Genes, Genomes, Genetics | 2014 | 369 |
| 9 | A Genome-Wide Association Study of Resistance to Stripe Rust (Puccinia striiformisf. sp.tritici) in a Worldwide Collection of Hexaploid Spring Wheat (Triticum aestivumL.) | G3: Genes, Genomes, Genetics | 2015 | 356 |
| 10 | The Genomic and Transcriptomic Landscape of a HeLa Cell Line | G3: Genes, Genomes, Genetics | 2013 | 355 |
| 11 | The Awesome Power of Yeast Evolutionary Genetics: New Genome Sequences and Strain Resources for theSaccharomyces sensu strictoGenus | G3: Genes, Genomes, Genetics | 2011 | 348 |
| 12 | Canopy Temperature and Vegetation Indices from High-Throughput Phenotyping Improve Accuracy of Pedigree and Genomic Selection for Grain Yield in Wheat | G3: Genes, Genomes, Genetics | 2016 | 336 |
| 13 | Large-Scale Screening for Targeted Knockouts in the Caenorhabditis elegans Genome | G3: Genes, Genomes, Genetics | 2012 | 310 |
| 14 | oPOSSUM-3: Advanced Analysis of Regulatory Motif Over-Representation Across Genes or ChIP-Seq Datasets | G3: Genes, Genomes, Genetics | 2012 | 293 |
| 15 | Increased Prediction Accuracy in Wheat Breeding Trials Using a Marker × Environment Interaction Genomic Selection Model | G3: Genes, Genomes, Genetics | 2015 | 266 |
| 16 | Improved Placement of Multi-mapping Small RNAs | G3: Genes, Genomes, Genetics | 2016 | 263 |
| 17 | Comparison of T7E1 and Surveyor Mismatch Cleavage Assays to Detect Mutations Triggered by Engineered Nucleases | G3: Genes, Genomes, Genetics | 2015 | 260 |
| 18 | PRICE: Software for the Targeted Assembly of Components of (Meta) Genomic Sequence Data | G3: Genes, Genomes, Genetics | 2013 | 250 |
| 19 | Construction of Reference Chromosome-Scale Pseudomolecules for Potato: Integrating the Potato Genome with Genetic and Physical Maps | G3: Genes, Genomes, Genetics | 2013 | 244 |
| 20 | Effectiveness of Genomic Prediction of Maize Hybrid Performance in Different Breeding Populations and Environments | G3: Genes, Genomes, Genetics | 2012 | 242 |
| 21 | Genomic Prediction in Maize Breeding Populations with Genotyping-by-Sequencing | G3: Genes, Genomes, Genetics | 2013 | 235 |
| 22 | A New Chicken Genome Assembly Provides Insight into Avian Genome Structure | G3: Genes, Genomes, Genetics | 2017 | 228 |
| 23 | Development of a 63K SNP Array for Cotton and High-Density Mapping of Intraspecific and Interspecific Populations of Gossypium spp. | G3: Genes, Genomes, Genetics | 2015 | 226 |
| 24 | An Eight-Parent Multiparent Advanced Generation Inter-Cross Population for Winter-Sown Wheat: Creation, Properties, and Validation | G3: Genes, Genomes, Genetics | 2014 | 215 |
| 25 | Fingerprinting Soybean Germplasm and Its Utility in Genomic Research | G3: Genes, Genomes, Genetics | 2015 | 212 |
| 26 | The Mouse Universal Genotyping Array: From Substrains to Subspecies | G3: Genes, Genomes, Genetics | 2016 | 199 |
| 27 | Quantitative Trait Locus Mapping Methods for Diversity Outbred Mice | G3: Genes, Genomes, Genetics | 2014 | 195 |
| 28 | The Developmental Transcriptome of the Mosquito Aedes aegypti, an Invasive Species and Major Arbovirus Vector | G3: Genes, Genomes, Genetics | 2013 | 189 |
| 29 | Comparison Between Linear and Non-parametric Regression Models for Genome-Enabled Prediction in Wheat | G3: Genes, Genomes, Genetics | 2012 | 187 |
| 30 | Reconstructing the Backbone of the Saccharomycotina Yeast Phylogeny Using Genome-Scale Data | G3: Genes, Genomes, Genetics | 2016 | 187 |
| 31 | Species-Level Deconvolution of Metagenome Assemblies with Hi-C–Based Contact Probability Maps | G3: Genes, Genomes, Genetics | 2014 | 177 |
| 32 | A Discovery Resource of Rare Copy Number Variations in Individuals with Autism Spectrum Disorder | G3: Genes, Genomes, Genetics | 2012 | 175 |
| 33 | Imputation of Unordered Markers and the Impact on Genomic Selection Accuracy | G3: Genes, Genomes, Genetics | 2013 | 172 |
| 34 | Retrospective View of North American Potato (Solanum tuberosumL.) Breeding in the 20th and 21st Centuries | G3: Genes, Genomes, Genetics | 2013 | 171 |
| 35 | Comparative Genomics of a Plant-Pathogenic Fungus,Pyrenophora tritici-repentis, Reveals Transduplication and the Impact of Repeat Elements on Pathogenicity and Population Divergence | G3: Genes, Genomes, Genetics | 2013 | 167 |
| 36 | Whole Genome Comparison Reveals High Levels of Inbreeding and Strain Redundancy Across the Spectrum of Commercial Wine Strains ofSaccharomyces cerevisiae | G3: Genes, Genomes, Genetics | 2016 | 166 |
| 37 | Exome Sequencing: Current and Future Perspectives | G3: Genes, Genomes, Genetics | 2015 | 165 |
| 38 | Mapping Bias Overestimates Reference Allele Frequencies at the HLA Genes in the 1000 Genomes Project Phase I Data | G3: Genes, Genomes, Genetics | 2015 | 164 |
| 39 | Genomic Prediction of Gene Bank Wheat Landraces | G3: Genes, Genomes, Genetics | 2016 | 159 |
| 40 | Mutation Rate Inferred From Synonymous Substitutions in a Long-Term Evolution Experiment With Escherichia coli | G3: Genes, Genomes, Genetics | 2011 | 157 |
| 41 | Genetic Architecture of Resistance to Stripe Rust in a Global Winter Wheat Germplasm Collection | G3: Genes, Genomes, Genetics | 2016 | 154 |
| 42 | Genome-Wide Association Study and Pathway-Level Analysis of Tocochromanol Levels in Maize Grain | G3: Genes, Genomes, Genetics | 2013 | 152 |
| 43 | Extensive Differences in Gene Expression Between Symbiotic and Aposymbiotic Cnidarians | G3: Genes, Genomes, Genetics | 2014 | 150 |
| 44 | Major Improvements to the Heliconius melpomene Genome Assembly Used to Confirm 10 Chromosome Fusion Events in 6 Million Years of Butterfly Evolution | G3: Genes, Genomes, Genetics | 2016 | 149 |
| 45 | Parametric and Nonparametric Statistical Methods for Genomic Selection of Traits with Additive and Epistatic Genetic Architectures | G3: Genes, Genomes, Genetics | 2014 | 148 |
| 46 | SNP Assay Development for Linkage Map Construction, Anchoring Whole-Genome Sequence, and Other Genetic and Genomic Applications in Common Bean | G3: Genes, Genomes, Genetics | 2015 | 147 |
| 47 | An SNP-Based Linkage Map for Zebrafish Reveals Sex Determination Loci | G3: Genes, Genomes, Genetics | 2011 | 145 |
| 48 | Sequence-Based Mapping of the Polyploid Wheat Genome | G3: Genes, Genomes, Genetics | 2013 | 143 |
| 49 | Genome-Wide Association and Genomic Selection for Resistance to Amoebic Gill Disease in Atlantic Salmon | G3: Genes, Genomes, Genetics | 2018 | 142 |
| 50 | A New Dataset of Spermatogenic vs. Oogenic Transcriptomes in the Nematode Caenorhabditis elegans | G3: Genes, Genomes, Genetics | 2014 | 141 |
