| 2022 | WABI | Toward Optimal Fingerprint Indexing for Large Scale Genomics. | Clment Agret, Bastien Cazaux, Antoine Limasset |
| 2021 | CPM | A Linear Time Algorithm for Constructing Hierarchical Overlap Graphs. | Sangsoo Park, Sung Gwan Park, Bastien Cazaux, Kunsoo Park, Eric Rivals |
| 2021 | ISAAC | Algorithms and Complexity on Indexing Elastic Founder Graphs. | Massimo Equi, Tuukka Norri, Jarno Alanko, Bastien Cazaux, Alexandru I. Tomescu, Veli Mkinen |
| 2020 | SPIRE | Efficient Construction of Hierarchical Overlap Graphs. | Sung Gwan Park, Bastien Cazaux, Kunsoo Park, Eric Rivals |
| 2020 | WABI | Linear Time Construction of Indexable Founder Block Graphs. | Veli Mkinen, Bastien Cazaux, Massimo Equi, Tuukka Norri, Alexandru I. Tomescu |
| 2019 | CPM | Linking BWT and XBW via Aho-Corasick Automaton: Applications to Run-Length Encoding. | Bastien Cazaux, Eric Rivals |
| 2019 | SPIRE | Linear Time Maximum Segmentation Problems in Column Stream Model. | Bastien Cazaux, Dmitry Kosolobov, Veli Mkinen, Tuukka Norri |
| 2019 | WABI | Finding All Maximal Perfect Haplotype Blocks in Linear Time. | Jarno Alanko, Hideo Bannai, Bastien Cazaux, Pierre Peterlongo, Jens Stoye |
| 2018 | CPM | Superstrings with multiplicities. | Bastien Cazaux, Eric Rivals |
| 2018 | WABI | Minimum Segmentation for Pan-genomic Founder Reconstruction in Linear Time. | Tuukka Norri, Bastien Cazaux, Dmitry Kosolobov, Veli Mkinen |
| 2016 | AAIM | Superstring Graph: A New Approach for Genome Assembly. | Bastien Cazaux, Gustavo Sacomoto, Eric Rivals |
| 2016 | DCC | Shortest DNA Cyclic Cover in Compressed Space. | Bastien Cazaux, Rodrigo Cnovas, Eric Rivals |
| 2015 | LATA | Construction of a de Bruijn Graph for Assembly from a Truncated Suffix Tree. | Bastien Cazaux, Thierry Lecroq, Eric Rivals |
| 2014 | CPM | From Indexing Data Structures to de Bruijn Graphs. | Bastien Cazaux, Thierry Lecroq, Eric Rivals |