Hindsight-Guided Rationale Distillation for Rare Disease Diagnosis

We study hindsight-guided distillation for rare disease diagnosis on ZebraMap: a 1.5B student is fine-tuned on chain-of-thought traces from a 8B teacher that observes the ground-truth diagnosis during generation. Absolute accuracy remains low for all models - the task is hard at this scale - but within this ceiling a filtered variant (StudentF) achieves a small, statistically significant accuracy advantage over the teacher (p < 0.001), concentrated in better-represented diseases. The unfiltered student does not significantly outperform the teacher (p = 0.129), establishing that contamination filtering - not hindsight distillation alone - drives the gain. The gap traces to an artifact we term GT hallucination. Label-visible generation causes the teacher to embed "ground truth is X" phrases in its reasoning chain; SFT copies the pattern. At inference, the unfiltered student reproduces the phrase in 33.9% of cases, with severe accuracy degradation when the hallucinated label is wrong. A regex filter removing these slots reduces contamination to near-zero, producing the observed gain - though the effect remains small. We precisely quantify this gain-cost tradeoff, document frequency-dependent knowledge transfer absent from the RL-trained teacher, and characterize a calibration gap that SFT does not close - identifying both as directions for future work.

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arXiv AI Papers·3 days ago☆

Rethinking the design space of Vanilla Pixel Diffusion Transformers↗

Pixel-space diffusion models have recently re-emerged as a compelling alternative to latent diffusion, avoiding the lossy latent bottleneck and separately trained autoencoder. JiT shows that a vanilla diffusion transformer can generate directly in pixel space by replacing the commonly used velocity prediction ({u}-prediction) with clean image prediction ({x_0}-prediction). In this work, we revisit this choice and introduce MFlow, an adaptive parameterization that learns to interpolate between {x_0}- and {u}-prediction across principal directions of the data, learned end-to-end with diffusion training. We find that the preferred parameterization varies systematically with the data representation and model capacity -- notably, increasing model capacity shifts preference toward velocity prediction. We evaluate MFlow across ImageNet, UCF-101 video, and large-scale text-to-image generation, demonstrating competitive or improved generative performance across diverse settings. In addition, we find that vanilla pixel diffusion transformers, irrespective of parameterization, retain a persistent high-frequency deficit relative to real images. To address this, we introduce ConvRefiner, a lightweight convolutional module trained post-hoc with an adversarial loss while keeping the diffusion backbone frozen. With only a small amount of additional training, ConvRefiner restores the high-frequency statistics of generated images while preserving FID. Project webpage: https://soumik-kanad.github.io/mflow-diffusion/.

arXiv AI Papers·3 days ago☆

Behavioral Couplings: From Formation to Behavioral Emergence in Language Models↗

Fine-tuning large language models (LLMs) can induce behaviors beyond those explicitly targeted. For example, training a model to respond more warmly can make it more sycophantic, and training it to write insecure code can cause broad misalignment on prompts unrelated to coding. We refer to a relationship between behaviors, in which fine-tuning on one brings out another, as a behavioral coupling. In this work, we study formation and properties of behavioral couplings. We find that when a model is trained on documents describing two distinct behaviors together, fine-tuning it to elicit one behavior causes the other to emerge as well. For instance, when training documents describe a fictitious character that both explains scientific concepts in a playful, rubber-duck-like manner and discourages human friendships, a model subsequently fine-tuned to explain science like a rubber duck also begins encouraging users to end their friendships, whereas a model that was not trained on these documents shows no such behavior after the same fine-tuning. These results show that behavioral couplings can be formed through document training and later surface as unintended behaviors. More concerningly, we find that couplings can compose. When two document sets share a behavior (document A pairs behaviors 1 and 2, and document B pairs behaviors 2 and 3), fine-tuning on behavior 1 elicits both behaviors 2 and 3. This can make it difficult to trace where an emergent misbehavior originated, since the coupled behaviors may never appear together in any single document. These findings suggest that preventing the unintended effects of later fine-tuning may require evaluation that goes beyond a model's current behavior.

arXiv AI Papers·3 days ago☆

AI-Driven Reproducibility and Analytical Robustness in Scientific Discovery↗

Reproducible and analytically robust research findings are essential to scientific progress, but evaluating these properties typically requires costly manual effort. We investigate whether LLM agents can help automate reproduction and robustness analysis, using a medical case study grounded in the Surveillance, Epidemiology, and End Results (SEER) database, a widely used U.S. cancer registry underlying tens of thousands of published studies. First, we introduce SEER-Repro, a benchmark of 20 published SEER-based papers together with the data and resources required to reproduce their findings. Second, we create an AI agent that successfully reproduces 77.4% of 2,190 atomic claims, while providing executable baselines for further analysis. Third, we develop an agentic analysis pipeline to test the robustness of the medical findings by identifying analytical choices underlying each finding, proposing defensible alternatives, and rerunning the analysis to determine whether those choices affect the conclusion. Across published papers in SEER-Repro, our pipeline identifies potentially consequential analytical choices in 9.5% of fully reproduced findings and flags them for expert review. These results show how LLM agents can support scientific review by reproducing findings, systematically testing their robustness, and directing expert attention toward potentially consequential analytical choices.

arXiv AI Papers·3 days ago☆

DiscoveryRSI: Recursively Learning to Discover Valuable Hypotheses↗

Scientific discovery requires developing worthwhile hypotheses into practical investigations, yet learning from this evolving research process remains challenging. We introduce an operational definition of valuable and testable research hypotheses: evidence-grounded claims about consequential uncertainties, coupled with feasible investigations, explicit decision criteria, and alternative explanations. Our DiscoveryRSI framework develops hypothesis trees through multi-agent evolutionary search, compiles selected investigations into executable Harbor tasks, and recursively learns through three mechanisms: hypothesis credit optimization attributes scientific assessments to documented research contributions; harness replay identifies productive strategies and recurring failures to refine research workflows; and rediscovery applies accepted improvements to new investigations, generating further experience for subsequent learning. We also introduce DFM-Bench, which provides comprehensive assessment of hypothesis quality and cumulative research progress at the levels of hypotheses, revisions, development paths and research runs. Across four life-science domains, automated evaluation shows that hypothesis quality rises from 4.86 for the base model to 5.39 after two rounds of self-improvement, with the large gains in falsifiability and data resolvability. We further validate hypothesis quality through expert review, comparing our DiscoveryRSI-27B with other research agents. Preliminary human assessments show that DiscoveryRSI-27B scores higher than GPT-6 Luna on hypothesis importance and whether claims are plausible and evidence-bounded. DiscoveryRSI-27B achieved a 6.3% rate of hypothesis correspondence with research published after the model cutoff, largely outperform GPT-6 with 2.5% and Claude Opus 5 with 2.3%, while delivering greater human-rated improvement along research paths.