Bryce Kille | Treangen lab at Rice University

Bryce (4th year PhD student, Computer Science) received his MS in Bioinformatics and BS in Computer Science + Chemistry from the University of Illinois at Urbana-Champaign. As an undergraduate, he worked at Dow Agrosciences in both the computational biology and cheminformatics groups. His projects included developing software for phylogeny analysis and creating models for compound activity prediction. During his Master’s program, Bryce worked in a biochemistry lab developing software for genome mining (Schwalen et al., 2018) as well as a on research project for creating bit-wise algorithms for the C++ STL (BitLib). One of his main interests is casting biological and chemical problems into theoretical computer science questions.

As a PhD student, Bryce has worked on a range of sequence-analysis applications, such as genome alignment (Kille et al., 2023; Kille et al., 2024) and variant calling (Kille et al., 2021). Bryce is currently a NLM Biomedical Informatics predoctoral fellow (NIH grant T15LM007093).

References

2024

Parsnp 2.0: scalable core-genome alignment for massive microbial datasets

Bryce Kille, Michael G Nute, Victor Huang, and 3 more authors

Bioinformatics, 2024

Bib

@article{kille2024parsnp,
  title = {Parsnp 2.0: scalable core-genome alignment for massive microbial datasets},
  author = {Kille, Bryce and Nute, Michael G and Huang, Victor and Kim, Eddie and Phillippy, Adam M and Treangen, Todd J},
  year = {2024},
  journal = {Bioinformatics},
  publisher = {Oxford University Press},
  volume = {40},
  number = {5},
  pages = {btae311}
}

2023

Minmers are a generalization of minimizers that enable unbiased local Jaccard estimation

Bryce Kille, Erik Garrison, Todd J Treangen, and 1 more author

Bioinformatics, 2023

Bib

@article{kille2023minmers,
  title = {Minmers are a generalization of minimizers that enable unbiased local Jaccard estimation},
  author = {Kille, Bryce and Garrison, Erik and Treangen, Todd J and Phillippy, Adam M},
  year = {2023},
  journal = {Bioinformatics},
  publisher = {Oxford University Press},
  volume = {39},
  number = {9},
  pages = {btad512}
}

2021

Accelerating SARS-CoV-2 low frequency variant calling on ultra deep sequencing datasets

Bryce Kille, Yunxi Liu, Nicolae Sapoval, and 4 more authors

In 2021 IEEE International Parallel and Distributed Processing Symposium Workshops (IPDPSW), 2021

Bib

@inproceedings{kille2021accelerating,
  title = {Accelerating SARS-CoV-2 low frequency variant calling on ultra deep sequencing datasets},
  author = {Kille, Bryce and Liu, Yunxi and Sapoval, Nicolae and Nute, Michael and Rauchwerger, Lawrence and Amato, Nancy and Treangen, Todd J},
  year = {2021},
  booktitle = {2021 IEEE International Parallel and Distributed Processing Symposium Workshops (IPDPSW)},
  pages = {204--208},
  organization = {IEEE}
}

2018

Bioinformatic expansion and discovery of thiopeptide antibiotics

Christopher J Schwalen, Graham A Hudson, Bryce Kille, and 1 more author

Journal of the American Chemical Society, 2018

Bib

@article{schwalen2018bioinformatic,
  title = {Bioinformatic expansion and discovery of thiopeptide antibiotics},
  author = {Schwalen, Christopher J and Hudson, Graham A and Kille, Bryce and Mitchell, Douglas A},
  journal = {Journal of the American Chemical Society},
  volume = {140},
  number = {30},
  pages = {9494--9501},
  year = {2018},
  publisher = {ACS Publications}
}