K Karthikeyan

Karthikeyan K, Raghuveer Thirukovalluru, Bhuwan Dhingra et al.

Large language model agents for data analysis typically generate and execute code directly on databases. However, when applied to sensitive data, this approach poses significant security risks. To address this issue, we propose a security-motivated alternative: restrict LLMs from direct code generation and data access, and require them to interact with data exclusively through a predefined set of secure, verified tools. Although recent tool-use benchmarks exist, they primarily target tool selection and simple execution rather than the compositional, multi-step reasoning needed for complex data analysis. To reduce this gap, we introduce Indirect Data Engagement (InData), a dataset designed to assess LLMs' multi-step tool-based reasoning ability. InData includes data analysis questions at three difficulty levels--Easy, Medium, and Hard--capturing increasing reasoning complexity. We benchmark 15 open-source LLMs on InData and find that while large models (e.g., gpt-oss-120b) achieve high accuracy on Easy tasks (97.3%), performance drops sharply on Hard tasks (69.6%). These results show that current LLMs still lack robust multi-step tool-based reasoning ability. With InData, we take a step toward enabling the development and evaluation of LLMs with stronger multi-step tool-use capabilities. We will publicly release the dataset and code.

Karthikeyan K, Raghuveer Thirukovalluru, David Carlson

Clinical notes contain valuable, context-rich information, but their unstructured format introduces several challenges, including unintended biases (e.g., gender or racial bias), and poor generalization across clinical settings (e.g., models trained on one EHR system may perform poorly on another due to format differences) and poor interpretability. To address these issues, we present ClinStructor, a pipeline that leverages large language models (LLMs) to convert clinical free-text into structured, task-specific question-answer pairs prior to predictive modeling. Our method substantially enhances transparency and controllability and only leads to a modest reduction in predictive performance (a 2-3% drop in AUC), compared to direct fine-tuning, on the ICU mortality prediction task. ClinStructor lays a strong foundation for building reliable, interpretable, and generalizable machine learning models in clinical environments.

Karthikeyan K, Raghuveer Thirukovalluru, David Carlson

Large Language Models have advanced clinical text classification, but their opaque predictions remain a critical barrier to practical adoption in research and clinical settings where investigators and physicians need to understand which parts of a patient's record drive risk signals. To address this challenge, we introduce \textbf{CALM}, short for \textbf{Classification with Additive Large Language Models}, an interpretable framework for semi-structured text where inputs are composed of semantically meaningful components, such as sections of an admission note or question-answer fields from an intake form. CALM predicts outcomes as the additive sum of each component's contribution, making these contributions part of the forward computation itself and enabling faithful explanations at both the patient and population level. The additive structure also enables clear visualizations, such as component-level risk curves similar to those used in generalized additive models, making the learned relationships easier to inspect and communicate. Although CALM expects semi-structured inputs, many clinical documents already have this form, and similar structure can often be automatically extracted from free-text notes. CALM achieves performance comparable to conventional LLM classifiers while improving trust, supporting quality-assurance checks, and revealing clinically meaningful patterns during model development and auditing.