Published in Submitted, 2024
A manuscript containing the results of my doctoral research.
Recommended citation: Abner J. Salgado and Shane E. Sawyer. (2024). "A Semi-Analytic Diagonalization FEM for the Spectral Fractional Laplacian " Submitted.
Download Paper | Download Bibtex
Published in American Geophysical Union, Fall Meeting 2019, 2019
The microbial world primarily consists of taxa that are distantly related to species that have been grown in culture. These taxa are a potential wellspring of undiscovered genomic function, but the quantity of novel functional genes in an organism does not necessarily track the phylogenetic divergence of that organism from cultured lineages. In order to test whether phylogenetically divergent microbes also contain more novel genetic material, we measured the sequence similarity between each gene in approximately 15,000 genomes of bacterial and archaeal isolates, metagenome-assembled genomes, and single-cell genomes, to the most similar gene in the SwissProt database of genes of well-known function. We compared these sequence similarities between predicted proteins to the phylogenetic distance between each organism and its closest cultured relative, allowing us to assess whether uncultured phyla contain more genetic novelty than cultured phyla. A similar analysis allowed us to measure the quantity of genetic novelty within ecosystems. Finally, we measured the typical distance between genes of unknown function within taxa and within environments in order to test whether some phyla or environments contain more, different kinds of genes than others. We will assess whether uncultured phyla contain greater genetic novelty than cultured phyla, in which case uncharacterized organisms may be a source for novel metabolic functions that influence geochemical cycles.
Published in BICoB 2019 : 11th International Conference on Bioinformatics and Computational Biology, 2019
This paper presents improved results of the HPC-BLAST project.
Recommended citation: Shane Sawyer, Mitchel Horton, Chad Burdyshaw, Glenn Brook, and Bhanu Rekapalli. (2019). "HPC-BLAST: distributed BLAST for modern HPC clusters." Proceedings of 11th International Conference.
Download Bibtex
Published in 45th AIAA Aerospace Sciences Meeting and Exhibit, 2007
Recommended citation: Kidambi Sreenivas, Brent Mitchell, Shane Sawyer, Steve Karman, Stephen Nichols, and Daniel Hyams. (2007). "Computational Prediction of Forces and Moments for Transport Aircraft " 45th AIAA Aerospace Sciences Meeting and Exhibit Paper No. 2007-0681.
Published in 45th AIAA Aerospace Sciences Meeting and Exhibit, 2007
Recommended citation: Kidambi Sreenivas, D. Nichols, Daniel Hyams, Brent Mitchell, Shane Sawyer, Lafayette Taylor and David Whitfield. (2007). "Computational Simulation of Heavy Trucks " 45th AIAA Aerospace Sciences Meeting and Exhibit Paper No. 2007-0681.
Published in 45th AIAA Aerospace Sciences Meeting and Exhibit, 2007
Recommended citation: Steve L. Karman Jr., Brent Mitchell, Shane Sawyer, and Justin Whitt. (2007). "Unstructured Grid Solutions of CAWAPI F-16XL by UT SimCenter " 45th AIAA Aerospace Sciences Meeting and Exhibit Paper No. 2007-0681.
Published in SIAM Conference on Parallel Processing for Scientific Computing 2024, 2024
A poster presentation showcasing my doctoral research.
Published in 6th ACM Conference on Bioinformatics, Computational Biology and Health Informatics, 2015
A poster presentation for early HPC-BLAST architecture.