生物质sorbent中基因型x表型相互作用的分类和可视化
Classification and Visualization of Genotype x Phenotype Interactions in Biomass Sorghum
摘要：
我们介绍了一种简单的方法来理解单核苷酸多态性（SNP）或相关SNP组之间的关系，以及它们控制的表型。该管道涉及训练深度卷积神经网络（CNN），以区分具有各种SNP的参考和替代版本的植物图像，然后使用可视化方法突出分类网络的关键。我们展示了深度CNN执行此分类任务的能力，并展示了这些可视化在TERRA-REF机架捕获的生物质高粱RGB图像上的实用性。我们专注于几个不同的遗传标记与已知的表型表达，并讨论了使用这种方法来揭示基因型X表型关系的可能性。
英文摘要：
We introduce a simple approach to understanding the relationship between single nucleotide polymorphisms (SNPs), or groups of related SNPs, and the phenotypes they control. The pipeline involves training deep convolutional neural networks (CNNs) to differentiate between images of plants with reference and alternate versions of various SNPs, and then using visualization approaches to highlight what the classification networks key on. We demonstrate the capacity of deep CNNs at performing this classification task, and show the utility of these visualizations on RGB imagery of biomass sorghum captured by the TERRA-REF gantry. We focus on several different genetic markers with known phenotypic expression, and discuss the possibilities of using this approach to uncover genotype x phenotype relationships.
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