A5065335417- Genomics and Phylogenetic Studies
- Algorithms and Data Compression
- Chromosomal and Genetic Variations
- Probiotics and Fermented Foods
- Genomic variations and chromosomal abnormalities
- Cancer Genomics and Diagnostics
- Gene expression and cancer classification
Rice University
2020-2022
A maximal homologous group, or MHG, as a group of sequences with shared evolutionary ancestry, shifts the focus from gene-centric view to homology-centric in comparative genomic studies. Each MHG is formed by identifying and grouping all sequences, which ensures that events, such horizontal gene transfer, duplication loss, de novo sequence evolution, are encapsulated within same MHG. However, current computation tool, MHG-Finder, faces challenges scalability handle large datasets lacks...
<ns3:p>In October 2019, 46 scientists from around the world participated in first National Center for Biotechnology Information (NCBI) Structural Variation (SV) Codeathon at Baylor College of Medicine. The charge this annual working session was to identify ongoing challenges topics SV and graph genomes, response design reliable methods facilitate their study. Over three days, seven groups each designed developed new open-sourced improve bioinformatic analysis genomic SVs represented...
Phylogenomic studies of prokaryotic taxa often assume conserved marker genes are homologous across their length. However, processes such as horizontal gene transfer or duplication and loss may disrupt this homology by recombining only parts genes, causing fission fusion. We show using simulation that it is necessary to delineate groups in a set bacterial genomes without relying on annotations define the boundaries regions. To solve problem, we have developed graph-based algorithm partition...