dc.contributor.advisor | Xu, Dong, 1965- | eng |
dc.contributor.advisor | Joshi, Trupti | eng |
dc.contributor.author | Liu, Yang | eng |
dc.date.issued | 2019 | eng |
dc.date.submitted | 2019 Fall | eng |
dc.description.abstract | [ACCESS RESTRICTED TO THE UNIVERSITY OF MISSOURI AT REQUEST OF AUTHOR.] With the advances in next-generation sequencing technology and significant reduction in sequencing costs, it is now possible to sequence large collections of germplasm in crops for detecting genome-scale genetic variations, and apply the knowledge towards improvements in traits. To facilitate large-scale NGS resequencing data analysis of genomic variations efficiently, we developed a systematic solution using high-performance computing environment, cloud data storage resources and graphics processing unit computing with cutting-edge deep learning approach. The solution contains an integrated and optimized variant calling workflow called 'PGen', a quantitative phenotype prediction model using convolutional neural network and an algorithm to study genome-wide association study based on deep convolutional neural network model. We reviewed and compared studies of statistical and deep learning genomic selection and genome-wide association methods, present our work on thousands of lines of soybean sequencing dataset, summarized ongoing progress of large-scale genome-associated studies and discussed the future work and development. | eng |
dc.description.bibref | Includes bibliographical references. | eng |
dc.format.extent | x, 97 pages : illustration | eng |
dc.identifier.uri | https://hdl.handle.net/10355/72186 | |
dc.identifier.uri | https://doi.org/10.32469/10355/72186 | eng |
dc.language | English | eng |
dc.publisher | University of Missouri--Columbia | eng |
dc.relation.ispartofcommunity | University of Missouri--Columbia. Graduate School. Theses and Dissertations | eng |
dc.rights | Access to files is limited to the University of Missouri--Columbia. | eng |
dc.rights.license | This work is licensed under a Creative Commons Attribution-NonCommercial-NoDerivs 3.0 License. | |
dc.subject.other | Biology | eng |
dc.subject.other | Agriculture | eng |
dc.title | Large-scale soybean genome-wide variation workflow and association analysis using deep learning | eng |
dc.type | Thesis | eng |
thesis.degree.discipline | Informatics (MU) | eng |
thesis.degree.grantor | University of Missouri--Columbia | eng |
thesis.degree.level | Doctoral | eng |
thesis.degree.name | Ph. D. | eng |