Bryan Howie

TACO: An open, interpretable model for microsecond-scale TCR specificity prediction

TACO predicts TCR specificity against HLA-A*02:01-presented peptides using a statistical model, achieving AUROC 0.67 on held-out data and enabling efficient computational evaluation of TCR-peptide interactions.

HLAResolver: A statistical framework for resolving HLA ambiguity in T-cell response data

HLAResolver improves HLA resolution in T-cell response data by integrating MIRA responses with NetMHCpan predictions, achieving higher sensitivity and fewer candidate HLAs.

Shared TCRs in peripheral blood offer robust celiac disease classification independent of gluten Intake

The paper identifies CeD-specific TCRs in peripheral blood that classify celiac disease independently of gluten intake, showing higher predictive power than traditional TCRs.

Multi-centered T cell repertoire profiling identifies novel alterations in the immune repertoire of individuals with inflammatory bowel disease and validates previous findings

The paper profiles T cell receptor alpha repertoires in IBD patients across multiple cohorts, identifies disease-associated clonotypes, and validates findings in an independent dataset.

Seq2MAIT: A Novel Deep Learning Framework for Identifying Mucosal Associated Invariant T (MAIT) Cells

Seq2MAIT identifies MAIT cells from bulk TCR-sequencing data using a transformer-based model, achieving AUROC >0.80 across datasets.

Low-frequency variation in TP53 has large effects on head circumference and intracranial volume

The paper identifies 9 novel genetic loci, including low-frequency variants in TP53, associated with head circumference and intracranial volume in up to 46,000 individuals.