(I'm the one on the left)

I am a Ph.D. student in Computer Science at Brigham Young University with an emphasis in bioinformatics and high performance computing. My research interests span the areas of bioinformatics/computational biology and high performance computing. In general, I am interested in algorithms for medically relevant applications. I have specific interests in multiple sequence alignment, phylogeny search and biological networks.

I expect to graduate in the summer of 2008.

Below is a list of documents relevant to my applications:

Publications

Journals

1. H. Carroll, W. Beckstead, T. O'Connor, M. Ebbert, M. Clement, Q. Snell and D. McClellan (2007). DNA Reference Alignment Benchmarks Based on Tertiary Structure of Encoded Proteins. Bioinformatics, 23(19), pages 2648-2649. (preprint pdf, web)
2. H. Carroll, P. Ridge, M. Clement and Q. Snell (2007). Phylogenies Scores for Exhaustive Maximum Likelihood and Parsimony Scores Searches. International Journal of Bioinformatics Research and Applications (IJBRA) 3(4) pages 493-503. (pdf, web)

Peer-reviewed Conferences

3. N. Rungta, H. Carroll, E. Mercer, R. Roper, M. Clement, Q. Snell (2007). Analyzing Gene Relationships for Down Syndrome with Labeled Transitions Graphs. In Proceedings of Formal Methods in Computer Aided Design (FMCAD '07), pages 216-219. (pdf)
4. H. Carroll, M. Ebbert, M. Clement and Q. Snell (2007) PSODA: Better Tasting and Less Filling Than PAUP. In Proceedings of the 4th Biotechnology and Bioinformatics Symposium (BIOT 2007), pages 74-78. (pdf)
5. J. L. Krein, A. R. Teichert, H. D. Carroll, M. J. Clement and Q. O. Snell (2007) PsodaScript: Applying Advanced Language Constructs to Open-source Phylogenetic Search. In Proceedings of the 4th Biotechnology and Bioinformatics Symposium (BIOT 2007), pages 89-94. (pdf)
6. K. Sundberg, T. O'Connor, H. Carroll, M. Clement and Q. Snell (2007). Using parsimony to guide maximum likelihood searches. In Proceedings of the 7th IEEE International Conference on Bioinformatics and Bioengineering (BIBE 2007), II, pages 774-779. (pdf)
7. H. Carroll, P. Ridge, M. Clement and Q. Snell (2006). Effects of Gap Open and Gap Extension Penalties. In Proceedings of the Third Biotechnology and Bioinformatics Symposium (BIOT 2006) pages 19-23. (Best Student Paper Award) (pdf)
8. P. Ridge*, H. Carroll*, D. Sneddon, M. Clement and Q. Snell (2006). Large Grain Size Stochastic Optimization Alignment. In Proceedings of the Sixth IEEE Symposium on BioInformatics and BioEngineering (BIBE 2006) pages 127-134. (*Equally contributing authors) (pdf)
9. H. Carroll, M. Clement, Q. Snell and K. Crandall (2005). Phylogenetic Analysis on Large Sequence Data Sets. In Proceedings of the Second Biotechnology and Bioinformatics Symposium (BIOT 2005) pages 20-24. (pdf)
10. H. Carroll, J. K. Flanagan and S. Baniya (2005). A Trace-Driven Simulator For Palm OS Devices. In Proceedings of IEEE International Symposium on Performance Analysis of Systems and Software (ISPASS 2005), pages 157-166. (pdf)

Thesis and Posters

11. T. O'Connor, K. Sundberg, H. Carroll, Q. Snell, M. Clement (2007). Poster: Maximum likelihood search boosting via exploitation of parsimony methods. Society for Molecular Biology and Evolution.
12. H. Carroll (2004). Masters Thesis: A Trace-Driven Simulator for Palm OS Devices. Brigham Young University. (pdf)

Hyrum D. Carroll

Publications

Journals

Peer-reviewed Conferences

Thesis and Posters