Identifying T Cell Receptors from High-Throughput Sequencing: Dealing with Promiscuity in TCRα and TCRβ Pairing. - Edward S. Lee; Paul G. Thomas; Jeff E. Mold; Andrew J. Yates (PLoS Comput. Biol., 2017)

VDJdb: a curated database of T-cell receptor sequences with known antigen specificity. - Mikhail Shugay; Dmitriy V. Bagaev; Ivan V. Zvyagin; Renske M. A. Vroomans; Jeremy Chase Crawford; Garry Dolton; Ekaterina Komech; Anastasiya L. Sycheva; Anna E. Koneva; Evgeniy S. Egorov; Alexey V. Eliseev; Ewald van Dyk; et al. (Nucleic Acids Res., 2018)

Comparing T cell receptor repertoires using optimal transport. - Branden J. Olson; Stefan A. Schattgen; Paul G. Thomas; Philip Bradley; Frederick A. Matsen IV (PLoS Comput. Biol., 2022)

Learning predictive signatures of HLA type from T-cell repertoires. - María Ruiz Ortega; Mikhail V. Pogorelyy; Anastasia A. Minervina; Paul G. Thomas; Thierry Mora; Aleksandra M. Walczak (PLoS Comput. Biol., 2025)

Unbiased and Error-Detecting Combinatorial Pooling Experiments with Balanced Constant-Weight Gray Codes for Consecutive Positives Detection. - Guanchen He; Vasilisa A. Kovaleva; Carl Barton; Paul G. Thomas; Mikhail V. Pogorelyy; Hannah V. Meyer; Qin Huang (CoRR, 2025)