In automated clinical coding, where the label space spans tens of thousands of diagnosis and procedure codes, models are currently evaluated against a single gold annotation, treating any deviation as error. But we find when two teams code the same 110 ACI-Bench encounters, they agree on only 73% of codes (Jaccard similarity) for the same note; even after an independent clinical audit removes erroneous codes, agreement rises only to 77%. Is that gap error or something systematic? We model the systematic component as coding style ψ, a coder- or site-specific policy over what to code and how much to document, and recast coding as p(code∣note,ψ), estimating ψ with a 10-dimension rubric. If style were noise, conditioning on it would do nothing. Instead, across five datasets a model conditioned with a data-matching style raises ICD F1 by up to 26 points and an extreme mismatched one lowers it by up to 21. Four prompt based coding methods spanning 39-49 F1 converge to 52-56 once style is supplied (All p<0.05). Much of what single-gold evaluation charges to model error is recoverable, unmodeled style.
Clinical coding agents repeatedly encounter the same failure modes, including unsupported codes, missed documented conditions, specificity errors, and procedure-coding convention mismatches. We introduce Learn-Then-Act, an inference-time adaptation framework that converts errors from a small labeled LEARN batch into a structured Mistake Knowledge Database (MistakeKDB). False-negative lessons are routed to a recall-oriented Coder, while false-positive lessons are routed to a precision-oriented Judge. We instantiate the framework in LearnActCoder, a Coder-Judge clinical coding pipeline with lookup-table grounding where available. On 150 matched MIMIC-III notes, structured MistakeKDB improves CPT F1 by 5.9 percentage points, while raw-example and reflection-style memories remain near the no-memory baseline; the ICD-9 improvement is not significant. On a matched MIMIC-IV cohort, memory shifts ICD-10 coding toward higher precision at a recall cost, leaving F1 statistically unchanged. Applying the same memory to 1,000 held-out MIMIC-III notes maintains a stable ICD operating point, providing scale/stability evidence. Overall, the results are consistent with structured, feedback-derived error memory being useful for adapting clinical coding behavior across cases without weight updates or changes to the underlying workflow. Absolute CPT/HCPCS performance remains low, and the system is evaluated retrospectively rather than in clinical deployment.
Clinical coding maps clinical documentation to standardized medical codes, an essential yet time-consuming administrative task that could benefit from automation. Current models on ICD coding are typically optimized for codes from a specific ICD version. However, in reality, ICD systems evolve continuously, and different versions are adopted across time periods and regions. Moreover, ICD coding suffers from the long-tail problem, and rare code performance can be a bottleneck for developing implementable models. We examine whether it is viable to train version-independent models by combining data annotated in different ICD versions, which may help address these challenges. We add ICD-9 data to the training of a modified label-wise attention model for ICD-10 prediction, and find that despite the version mismatch, adding ICD-9 yields a 27% increase in micro F1 for 18K rare ICD codes compared to training on ICD-10 alone. On 8K frequent ICD-10 codes, the multi-version training also substantially improves macro metrics, with far fewer model parameters.
Automatic medical coding assigns ICD codes to clinical notes, but it remains challenging due to long documents, imbalanced label distributions, and diverse terms. These challenges are especially severe for rare codes, which have limited training instances and are easily confused with semantically similar labels. We introduce CoLa-ICD, a knowledge-enhanced framework for long-tail prediction. CoLa-ICD enriches ICD labels with external terms, models dependencies among related codes, and learns stronger alignment between label semantics and clinical evidence for long-tail prediction. Experiments show that CoLa-ICD improves long-tail prediction with larger gains in larger and sparser label spaces and achieves state-of-the-art performance in AUC, F1, and P@k. Our code is available at https://github.com/youwillbethebest/Cola-ICD.