Automated International Classification of Diseases (ICD) coding is a core medical-coding task for billing, epidemiology, and clinical decision support. Generative large language models (LLMs) are often reported as weak medical coders, but this finding mainly comes from inference-time settings such as prompting, retrieval, reranking, or tool use; the role of task-specific post-training has received limited systematic study. We present a controlled empirical study of post-training for generative ICD coding, comparing discriminative baselines with LLM coders across prompting, supervised fine-tuning (SFT), and reinforcement learning (RL) under a common protocol and metric set. To our knowledge, this is the first comprehensive controlled study of post-training for generative ICD prediction. We further introduce Progressive Hint Injection (PHI), a diagnostic missed-code curriculum within Group Relative Policy Optimization (GRPO) training. Our results show that prompting-only evaluation substantially underestimates the potential of LLMs for ICD coding. SFT provides the main capability jump, GRPO further improves code-set prediction beyond SFT, and PHI provides targeted gains on macro-level performance. These findings suggest that the main bottleneck is not the generative formulation alone, but how the model is adapted and optimized for full-taxonomy recall. We release our code, data splits, and checkpoints at https://anonymous.4open.science/r/LLM4ICD.

Knowledge-based visual question answering (KB-VQA) lets vision-language systems answer questions that exceed their parametric knowledge by conditioning a reader on passages retrieved from a Wikipedia-derived knowledge base. In pure-text long-context LLMs, retrieved-context use follows the U-shaped lost-in-the-middle effect of Liu et al. (2024): information at the start and end of context is used, the middle is lost. Whether this transfers to deployed multimodal KB-VQA is open. To close this gap, we design the first controlled probe of reader-side position dependence in multimodal KB-VQA: a gold-position protocol in which only the gold passage’s prompt slot varies within question. We run it on three open-source 7B/8B VLM readers and two KB-VQA benchmarks with up to 20 retrieved passages. The shape flips from U to primacy: gold-at-first beats gold-at-last by 16 to 26 points on all six combinations of reader and benchmark, an effect we call Lost at the End; the gap holds at every scale we test, 3B to 32B, attenuating at 32B. Three targeted ablations narrow the cause. A text-only control that removes the image and changes nothing else shows the primacy is already present in text mode and does not depend on the image. Image-position and distractor-shuffle ablations trace the effect to prompt slot 0 of the instruction-tuned reader, where a second answer-bearing passage placed later is largely wasted. On a frozen reader, three retrieval-side fixes (MMR, oracle reranking, rank-based reordering) all fail to improve on the deployment default. Our findings indicate that recall@k is the wrong metric for deployed KB-VQA and that the remaining headroom sits on the reader side; we release our protocol as a controlled instrument for evaluating reader-side interventions.

Despite long-standing efforts in accelerating scientific discovery with AI, building AI co-scientists remains challenging due to limited high-quality data for training and evaluation. To tackle this data scarcity issue, we present AutoSDT, an automatic pipeline that collects high-quality coding tasks in real-world data-driven discovery workflows. AutoSDT leverages the coding capabilities and parametric knowledge of LLMs to search for diverse sources, select ecologically valid tasks, and synthesize accurate task instructions and code solutions. Using our pipeline, we construct AutoSDT-5K, a dataset of 5,404 coding tasks for data-driven discovery that covers four scientific disciplines and 756 unique Python packages. To the best of our knowledge, AutoSDT-5K is the only automatically collected and the largest open dataset for data-driven scientific discovery. Expert feedback on a subset of 256 tasks shows the effectiveness of AutoSDT: 93% of the collected tasks are ecologically valid, and 92.2% of the synthesized programs are functionally correct. Trained on AutoSDT-5K, the Qwen2.5-Coder-Instruct LLM series, dubbed AutoSDT-Coder, show substantial improvement on two challenging data-driven discovery benchmarks, ScienceAgentBench and DiscoveryBench. Most notably, AutoSDT-Coder-32B reaches the same level of performance as GPT-4o on ScienceAgentBench with a success rate of 7.8%, doubling the performance of its base model. On DiscoveryBench, it lifts the hypothesis matching score to 8.1, bringing a 17.4% relative improvement and closing the gap between open-weight models and GPT-4o.

Systematic reviews (SRs) are vital for evidence-based practice in high stakes disciplines, such as healthcare, but are often impeded by intensive labors and lengthy processes that can take months to complete. Due to the high demand for domain expertise, existing automatic summarization methods fail to accurately identify relevant studies and generate high-quality summaries. To that end, we introduce InsightAgent, a human-centered interactive AI agent powered by large language models that revolutionize this workflow. InsightAgent partitions a large literature corpus based on semantics and employs a multi-agent design for more focused processing of literature, leading to significant improvement in the quality of generated SRs. InsightAgent also provides intuitive visualizations of the corpus and agent trajectories, allowing users to effortlessly monitor the actions of the agent and provide real-time feedback based on their expertise. Our user studies with 9 medical professionals demonstrate that the visualization and interaction mechanisms can effectively improve the quality of synthesized SRs by 27.2%, reaching 79.7% of human-written quality. At the same time, user satisfaction is improved by 34.4%. With InsightAgent, it only takes a clinician about 1.5 hours, rather than months, to complete a high-quality systematic review.

We introduce TacoBot, a user-centered task-oriented digital assistant designed to guide users through complex real-world tasks with multiple steps. Covering a wide range of cooking and how-to tasks, we aim to deliver a collaborative and engaging dialogue experience. Equipped with language understanding, dialogue management, and response generation components supported by a robust search engine, TacoBot ensures efficient task assistance. To enhance the dialogue experience, we explore a series of data augmentation strategies using LLMs to train advanced neural models continuously. TacoBot builds upon our successful participation in the inaugural Alexa Prize TaskBot Challenge, where our team secured third place among ten competing teams. We offer TacoBot as an open-source framework that serves as a practical example for deploying task-oriented dialogue systems.

Despite remarkable progress in text-to-SQL semantic parsing in recent years, the performance of existing parsers is still far from perfect. Specifically, modern text-to-SQL parsers based on deep learning are often over-confident, thus casting doubt on their trustworthiness when deployed for real use. In this paper, we propose a parser-independent error detection model for text-to-SQL semantic parsing. Using a language model of code as its bedrock, we enhance our error detection model with graph neural networks that learn structural features of both natural language questions and SQL queries. We train our model on realistic parsing errors collected from a cross-domain setting, which leads to stronger generalization ability. Experiments with three strong text-to-SQL parsers featuring different decoding mechanisms show that our approach outperforms parser-dependent uncertainty metrics. Our model could also effectively improve the performance and usability of text-to-SQL semantic parsers regardless of their architectures.

Despite recent progress in text-to-SQL parsing, current semantic parsers are still not accurate enough for practical use. In this paper, we investigate how to build automatic text-to-SQL error correction models. Noticing that token-level edits are out of context and sometimes ambiguous, we propose building clause-level edit models instead. Besides, while most language models of code are not specifically pre-trained for SQL, they know common data structures and their operations in programming languages such as Python. Thus, we propose a novel representation for SQL queries and their edits that adheres more closely to the pre-training corpora of language models of code. Our error correction model improves the exact set match accuracy of different parsers by 2.4-6.5 and obtains up to 4.3 point absolute improvement over two strong baselines.