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Articles by Mitchell Feldmann
Why Accuracy Metrics Fall Short in Comparing Phenomic and Genomic Prediction Models
Abstract Phenomic Selection is a new paradigm in plant breeding that uses high-throughput phenotyping technologies and machine learning models to predict traits of new individuals and make selections. This can allow breeders to evaluate more plants in higher throughput more accurately, resulting in faster rates of gain and reduced labor costs.
Why is usefulness rarely useful?
Abstract Mate selection plays an important role in breeding programs. The usefulness criterion was proposed as a criterion for mate selection, combining information on both the mean and standard deviation of the potential offspring, particularly in clonally propagated outbred species where large family sizes are possible.
Genetic gains underpinning a little-known strawberry Green Revolution - Nature Communications
Abstract The annual production of strawberry has increased by one million tonnes in the US and 8.4 million tonnes worldwide since 1960. Here we show that the US expansion was driven by genetic gains from Green Revolution breeding and production advances that increased yields by 2,755%.
Diamonds in the not-so-rough: Wild relative diversity hidden in crop genomes
Introduction Plant domestication is a process that began with cultures around the world experimenting with alternative means of food production. These experiments have expanded, undoubtedly, beyond the imaginations of their originators. Much of the planet’s surface is now involved, and most of human sustenance derives from experiments that originated among fewer than 1,000,000 humans starting 10 to 12,000 years before present.
Complex Traits and Candidate Genes: Estimation of Genetic Variance Components Across Modes of Inheritance
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Quantitative Evaluation of Nonlinear Methods for Population Structure Visualization & Inference
Abstract Population structure (also called genetic structure and population stratification) is the presence of a systematic difference in allele frequencies between sub-populations in a population as a result of non-random mating between individuals. It can be informative of genetic ancestry, and in the context of medical genetics it is an important confounding variable in genome wide association studies.
Genomic Heritability: A Ragged Diagonal Between Bias and Variance
Abstract Many important traits in plants, animals, and microbes are polygenic and are therefore difficult to improve through traditional marker?assisted selection. Genomic prediction addresses this by enabling the inclusion of all genetic data in a mixed model framework. The main method for predicting breeding values is genomic best linear unbiased prediction (GBLUP), which uses the realized genomic relationship or kinship matrix (K) to connect genotype to phenotype.
Accurate Estimation of Marker-Associated Genetic Variance and Heritability in Complex Trait Analyses
Abstract The emergence of high-throughput, genome-scale approaches for identifying and genotyping DNA variants has been a catalyst for the development of increasingly sophisticated whole-genome association and genomic prediction approaches, which together have revolutionized the study of complex traits in human, animal, and plant populations.
[1903.06811] Multi-camera calibration with pattern rigs, including for non-overlapping cameras: CALICO
[Submitted on 15 Mar 2019 ( v1 ), last revised 27 Mar 2024 (this version, v3)] Title:Multi-camera calibration with pattern rigs, including for non-overlapping cameras: CALICO View a PDF of the paper titled Multi-camera calibration with pattern rigs, including for non-overlapping cameras: CALICO, by Amy Tabb and Henry Medeiros and Mitchell J. Feldmann and Thiago T.
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