BarcodeBERT: Transformers for Biodiversity Analysis. - Pablo Millan Arias; Niousha Sadjadi; Monireh Safari; ZeMing Gong; Austin T. Wang; Scott C. Lowe; Joakim Bruslund Haurum; Iuliia Zarubiieva; Dirk Steinke; Lila Kari; Angel X. Chang; Graham W. Taylor (CoRR, 2023)

iDeLUCS: a deep learning interactive tool for alignment-free clustering of DNA sequences. - Pablo Millan Arias; Kathleen A. Hill; Lila Kari (Bioinform., 2023)

BIOSCAN-5M: A Multimodal Dataset for Insect Biodiversity. - Zahra Gharaee; Scott C. Lowe; ZeMing Gong; Pablo Millan Arias; Nicholas Pellegrino; Austin T. Wang; Joakim Bruslund Haurum; Iuliia Zarubiieva; Lila Kari; Dirk Steinke; Graham W. Taylor; Paul W. Fieguth; et al. (NeurIPS, 2024)

Deep Unsupervised Learning for Biodiversity Analyses: Representation learning and clustering of bacterial, mitochondrial, and barcode DNA sequences. - Pablo Millan Arias (2024)

Enhancing DNA Foundation Models to Address Masking Inefficiencies. - Monireh Safari; Pablo Millan Arias; Scott C. Lowe; Lila Kari; Angel X. Chang; Graham W. Taylor (CoRR, 2025)

Bridging Chaos Game Representations and k-mer Frequencies of DNA Sequences. - Haoze He; Lila Kari; Pablo Millan Arias (CoRR, 2025)