| 1 | BlobToolKit – Interactive Quality Assessment of Genome Assemblies | G3: Genes, Genomes, Genetics | 2020 | 2,079 |
| 2 | Stacks: Building and Genotyping Loci De Novo From Short-Read Sequences | G3: Genes, Genomes, Genetics | 2011 | 1,883 |
| 3 | Genotype Imputation with Thousands of Genomes | G3: Genes, Genomes, Genetics | 2011 | 938 |
| 4 | Evaluation and Design of Genome-Wide CRISPR/SpCas9 Knockout Screens | G3: Genes, Genomes, Genetics | 2017 | 582 |
| 5 | LinkImpute: Fast and Accurate Genotype Imputation for Nonmodel Organisms | G3: Genes, Genomes, Genetics | 2015 | 481 |
| 6 | Shrinkage Estimation of the Realized Relationship Matrix | G3: Genes, Genomes, Genetics | 2012 | 468 |
| 7 | The Reference Genome Sequence ofSaccharomyces cerevisiae: Then and Now | G3: Genes, Genomes, Genetics | 2014 | 424 |
| 8 | The Genomic and Transcriptomic Landscape of a HeLa Cell Line | G3: Genes, Genomes, Genetics | 2013 | 409 |
| 9 | 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 | 406 |
| 10 | RNA-Guided Genome Editing for Target Gene Mutations in Wheat | G3: Genes, Genomes, Genetics | 2013 | 404 |
| 11 | 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 | 390 |
| 12 | The Awesome Power of Yeast Evolutionary Genetics: New Genome Sequences and Strain Resources for theSaccharomyces sensu strictoGenus | G3: Genes, Genomes, Genetics | 2011 | 380 |
| 13 | Increased Prediction Accuracy in Wheat Breeding Trials Using a Marker × Environment Interaction Genomic Selection Model | G3: Genes, Genomes, Genetics | 2015 | 317 |
| 14 | Improved Placement of Multi-mapping Small RNAs | G3: Genes, Genomes, Genetics | 2016 | 316 |
| 15 | oPOSSUM-3: Advanced Analysis of Regulatory Motif Over-Representation Across Genes or ChIP-Seq Datasets | G3: Genes, Genomes, Genetics | 2012 | 298 |
| 16 | Comparison of T7E1 and Surveyor Mismatch Cleavage Assays to Detect Mutations Triggered by Engineered Nucleases | G3: Genes, Genomes, Genetics | 2015 | 293 |
| 17 | PRICE: Software for the Targeted Assembly of Components of (Meta) Genomic Sequence Data | G3: Genes, Genomes, Genetics | 2013 | 281 |
| 18 | Fingerprinting Soybean Germplasm and Its Utility in Genomic Research | G3: Genes, Genomes, Genetics | 2015 | 270 |
| 19 | Effectiveness of Genomic Prediction of Maize Hybrid Performance in Different Breeding Populations and Environments | G3: Genes, Genomes, Genetics | 2012 | 267 |
| 20 | Genomic Prediction in Maize Breeding Populations with Genotyping-by-Sequencing | G3: Genes, Genomes, Genetics | 2013 | 265 |
| 21 | Construction of Reference Chromosome-Scale Pseudomolecules for Potato: Integrating the Potato Genome with Genetic and Physical Maps | G3: Genes, Genomes, Genetics | 2013 | 264 |
| 22 | A New Chicken Genome Assembly Provides Insight into Avian Genome Structure | G3: Genes, Genomes, Genetics | 2017 | 263 |
| 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 | 252 |
| 24 | The Mouse Universal Genotyping Array: From Substrains to Subspecies | G3: Genes, Genomes, Genetics | 2016 | 242 |
| 25 | An Eight-Parent Multiparent Advanced Generation Inter-Cross Population for Winter-Sown Wheat: Creation, Properties, and Validation | G3: Genes, Genomes, Genetics | 2014 | 238 |
| 26 | Quantitative Trait Locus Mapping Methods for Diversity Outbred Mice | G3: Genes, Genomes, Genetics | 2014 | 226 |
| 27 | Comparison Between Linear and Non-parametric Regression Models for Genome-Enabled Prediction in Wheat | G3: Genes, Genomes, Genetics | 2012 | 215 |
| 28 | Repeats of Unusual Size in Plant Mitochondrial Genomes: Identification, Incidence and Evolution | G3: Genes, Genomes, Genetics | 2019 | 214 |
| 29 | Reconstructing the Backbone of the Saccharomycotina Yeast Phylogeny Using Genome-Scale Data | G3: Genes, Genomes, Genetics | 2016 | 209 |
| 30 | AlphaSimR: an R package for breeding program simulations | G3: Genes, Genomes, Genetics | 2021 | 206 |
| 31 | Exome Sequencing: Current and Future Perspectives | G3: Genes, Genomes, Genetics | 2015 | 203 |
| 32 | Benchmarking Parametric and Machine Learning Models for Genomic Prediction of Complex Traits | G3: Genes, Genomes, Genetics | 2019 | 203 |
| 33 | The Developmental Transcriptome of the Mosquito Aedes aegypti, an Invasive Species and Major Arbovirus Vector | G3: Genes, Genomes, Genetics | 2013 | 202 |
| 34 | Species-Level Deconvolution of Metagenome Assemblies with Hi-C–Based Contact Probability Maps | G3: Genes, Genomes, Genetics | 2014 | 202 |
| 35 | Genomic Prediction of Gene Bank Wheat Landraces | G3: Genes, Genomes, Genetics | 2016 | 200 |
| 36 | Retrospective View of North American Potato (Solanum tuberosumL.) Breeding in the 20th and 21st Centuries | G3: Genes, Genomes, Genetics | 2013 | 197 |
| 37 | Mapping Bias Overestimates Reference Allele Frequencies at the HLA Genes in the 1000 Genomes Project Phase I Data | G3: Genes, Genomes, Genetics | 2015 | 194 |
| 38 | Phenomic Selection Is a Low-Cost and High-Throughput Method Based on Indirect Predictions: Proof of Concept on Wheat and Poplar | G3: Genes, Genomes, Genetics | 2018 | 189 |
| 39 | Imputation of Unordered Markers and the Impact on Genomic Selection Accuracy | G3: Genes, Genomes, Genetics | 2013 | 187 |
| 40 | Optimising Genomic Selection in Wheat: Effect of Marker Density, Population Size and Population Structure on Prediction Accuracy | G3: Genes, Genomes, Genetics | 2018 | 184 |
| 41 | Extensive Differences in Gene Expression Between Symbiotic and Aposymbiotic Cnidarians | G3: Genes, Genomes, Genetics | 2014 | 183 |
| 42 | 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 | 183 |
| 43 | Large-Scale Low-Cost NGS Library Preparation Using a Robust Tn5 Purification and Tagmentation Protocol | G3: Genes, Genomes, Genetics | 2018 | 183 |
| 44 | A Discovery Resource of Rare Copy Number Variations in Individuals with Autism Spectrum Disorder | G3: Genes, Genomes, Genetics | 2012 | 182 |
| 45 | Parametric and Nonparametric Statistical Methods for Genomic Selection of Traits with Additive and Epistatic Genetic Architectures | G3: Genes, Genomes, Genetics | 2014 | 181 |
| 46 | Genome-Wide Association Study and Pathway-Level Analysis of Tocochromanol Levels in Maize Grain | G3: Genes, Genomes, Genetics | 2013 | 177 |
| 47 | Genome-Wide Association and Genomic Selection for Resistance to Amoebic Gill Disease in Atlantic Salmon | G3: Genes, Genomes, Genetics | 2018 | 177 |
| 48 | Mutation Rate Inferred From Synonymous Substitutions in a Long-Term Evolution Experiment With Escherichia coli | G3: Genes, Genomes, Genetics | 2011 | 175 |
| 49 | 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 | 174 |
| 50 | LongQC: A Quality Control Tool for Third Generation Sequencing Long Read Data | G3: Genes, Genomes, Genetics | 2020 | 172 |
