DCJ-indel Distance with Distinct Operation Costs. - Poly H. da Silva; Marília D. V. Braga; Raphael Machado; Simone Dantas (WABI, 2012)

Restricted DCJ-indel model: sorting linear genomes with DCJ and indels. - Poly H. da Silva; Raphael Machado; Simone Dantas; Marília D. V. Braga (BMC Bioinform., 2012)

DCJ-indel and DCJ-substitution distances with distinct operation costs. - Poly H. da Silva; Raphael Machado; Simone Dantas; Marília D. V. Braga (Algorithms Mol. Biol., 2013)

Graph-Theoretic Modelling of the Domain Chaining Problem. - Poly H. da Silva; Simone Dantas; Chunfang Zheng; David Sankoff (WABI, 2015)

Genomic Distance with High Indel Costs. - Poly H. da Silva; Raphael Machado; Simone Dantas; Marília D. V. Braga (IEEE ACM Trans. Comput. Biol. Bioinform., 2017)

Sampling Gene Adjacencies and Geodesic Points of Random Genomes. - Poly H. da Silva; Arash Jamshidpey; David Sankoff (RECOMB-CG, 2024)

Identifying Breakpoint Median Genomes: A Branching Algorithm Approach. - Poly H. da Silva; Arash Jamshidpey; David Sankoff (WABI, 2025)