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This research presents a novel framework for synthesizing compact adapter modules to adapt frozen AI backbones to T cell receptor analysis with minimal data. By leveraging lightweight task descriptors and motif-aware probes, the method addresses critical challenges like label sparsity while maintaining model interpretability in clinical settings. The approach offers a practical pathway for deploying immune-signature models where computational resources are constrained.
SwiftRepertoire: Few-Shot Immune-Signature Synthesis via Dynamic Kernel Codes
arXiv:2602.01051v5 Announce Type: replace Abstract: Repertoire-level analysis of T cell receptors offers a biologically grounded signal for disease detection and immune monitoring, yet practical deployment is impeded by label sparsity, cohort heterogeneity, and the computational burden of adapting large encoders to new tasks. We introduce a framework that synthesizes compact task-specific parameterizations from a learned dictionary of prototypes conditioned on lightweight task descriptors derived from repertoire probes and pooled embedding statistics. This synthesis produces small adapter modules applied to a frozen pretrained backbone, enabling immediate adaptation to novel tasks with only a handful of support examples and without full model fine-tuning. The architecture preserves interpretability through motif-aware probes and a calibrated motif discovery pipeline that links predictive decisions to sequence-level signals. Together, these components yield a practical, sample-efficient, and interpretable pathway for translating repertoire-informed models into diverse clinical and research settings where labeled data are scarce and computational resources are constrained.
Abstract:Repertoire-level analysis of T cell receptors offers a biologically grounded signal for disease detection and immune monitoring, yet practical deployment is impeded by label sparsity, cohort heterogeneity, and the computational burden of adapting large encoders to new tasks. We introduce a framework that synthesizes compact task-specific parameterizations from a learned dictionary of prototypes conditioned on lightweight task descriptors derived from repertoire probes and pooled embedding statistics. This synthesis produces small adapter modules applied to a frozen pretrained backbone, enabling immediate adaptation to novel tasks with only a handful of support examples and without full model fine-tuning. The architecture preserves interpretability through motif-aware probes and a calibrated motif discovery pipeline that links predictive decisions to sequence-level signals. Together, these components yield a practical, sample-efficient, and interpretable pathway for translating repertoire-informed models into diverse clinical and research settings where labeled data are scarce and computational resources are constrained.
19 pages, 8 figures, 8 tables. In the previous version, Juntendo University was erroneously listed as the affiliation; we must clarify that this paper has absolutely no relation to Juntendo University. Therefore, we have replaced this affiliation in the new version
Machine Learning (cs.LG)
arXiv:2602.01051 [cs.LG]
(or arXiv:2602.01051v5 [cs.LG] for this version)
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