Brain alignment of reasoning and action representations from vision-language and action models during naturalistic gameplay

Understanding how humans and artificial intelligence systems predict and plan by interacting with their environment is a fundamental challenge at the intersection of neuroscience and machine learning. Most brain-encoding studies focus on aligning artificial models with brain activity during language comprehension or passive visual processing, while interactive brain-alignment studies have to date been largely limited to reinforcement-learning (RL) agents and theory-based models. To address this gap, we study brain alignment of representative models from two foundation-model families, namely vision-language models (VLMs) and large-action models (LAMs), using fMRI recordings from participants playing naturalistic Atari-style video games. Specifically, we examine how action-focused and reasoning-focused prompts shape model's internal representations and align with fMRI brain activity. First, we find that both VLMs and LAMs exhibit significantly exhibit voxel-wise encoding performance than RL baselines, with the advantage holding even under matched feature dimensionality. Second, prompt-driven gains scale with the cortical processing hierarchy: the largest improvements appear in frontal-parietal and motor-planning regions, while early visual cortex gains roughly half as much. Third, variance partitioning reveals a qualitatively different representational organization: VLM is prompt-symmetric (12.5% unique action vs. 13.6% unique reasoning), whereas LAM is prompt-asymmetric (27% unique action vs. -5% unique reasoning), with the asymmetry strongest in frontal-motor cortex. Together, these results demonstrate that action-specialized fine-tuning reorganizes multimodal representations toward action-relevant neural computations even when whole-brain prediction accuracy is statistically equivalent between VLM and LAM.

Supplement Generation Training for Enhancing Agentic Task Performance

Training large foundation models for agentic tasks is increasingly impractical due to the high computational costs, long iteration cycles, and rapid obsolescence as new models are continuously released. Instead of post-training massive models for every new task or domain, we propose Supplement Generation Training (SGT), a more efficient and sustainable strategy. SGT trains a smaller LLM to generate useful supplemental text that, when appended to the original input, helps the larger LLM solve the task more effectively. These lightweight models can dynamically adapt supplements to task requirements, improving performance without modifying the underlying large models. This approach decouples task-specific optimization from large foundation models and enables more flexible, cost-effective deployment of LLM-powered agents in real-world applications.

Why Pass@k Optimization Can Degrade Pass@1: Prompt Interference in LLM Post-training

Pass@k is a widely used performance metric for verifiable large language model tasks, including mathematical reasoning, code generation, and short-answer reasoning. It defines success if any of $k$ independently sampled solutions passes a verifier. This multi-sample inference metric has motivated inference-aware fine-tuning methods that directly optimize pass@$k$. However, prior work reports a recurring trade-off: pass@k improves while pass@1 degrades under such methods. This trade-off is practically important because pass@1 often remains a hard operational constraint due to latency and cost budgets, imperfect verifier coverage, and the need for a reliable single-shot fallback. We study the origin of this trade-off and provide a theoretical characterization of when pass@k policy optimization can reduce pass@1 through gradient conflict induced by prompt interference. We show that pass@$k$ policy gradients can conflict with pass@1 gradients because pass@$k$ optimization implicitly reweights prompts toward low-success prompts; when these prompts are what we term negatively interfering, their upweighting can rotate the pass@k update direction away from the pass@1 direction. We illustrate our theoretical findings with large language model experiments on verifiable mathematical reasoning tasks.

Linguistic properties and model scale in brain encoding: from small to compressed language models

Recent work has shown that scaling large language models (LLMs) improves their alignment with human brain activity, yet it remains unclear what drives these gains and which representational properties are responsible. Although larger models often yield better task performance and brain alignment, they are increasingly difficult to analyze mechanistically. This raises a fundamental question: what is the minimal model capacity required to capture brain-relevant representations? To address this question, we systematically investigate how constraining model scale and numerical precision affects brain alignment. We compare full-precision LLMs, small language models (SLMs), and compressed variants (quantized and pruned) by predicting fMRI responses during naturalistic language comprehension. Across model families up to 14B parameters, we find that 3B SLMs achieve brain predictivity indistinguishable from larger LLMs, whereas 1B models degrade substantially, particularly in semantic language regions. Brain alignment is remarkably robust to compression: most quantization and pruning methods preserve neural predictivity, with GPTQ as a consistent exception. Linguistic probing reveals a dissociation between task performance and brain predictivity: compression degrades discourse, syntax, and morphology, yet brain predictivity remains largely unchanged. Overall, brain alignment saturates at modest model scales and is resilient to compression, challenging common assumptions about neural scaling and motivating compact models for brain-aligned language modeling.

Instruction-Tuned Video-Audio Models Elucidate Functional Specialization in the Brain

Recent voxel-wise multimodal brain encoding studies have shown that multimodal large language models (MLLMs) exhibit a higher degree of brain alignment compared to unimodal models in both unimodal and multimodal stimulus settings. More recently, instruction-tuned multimodal models have shown to generate task-specific representations that align strongly with brain activity. However, prior work evaluating the brain alignment of MLLMs has primarily focused on unimodal settings or relied on non-instruction-tuned multimodal models for multimodal stimuli. To address this gap, we investigated brain alignment, that is, measuring the degree of predictivity of neural activity recorded while participants were watching naturalistic movies (video along with audio) with representations derived from MLLMs. We utilized instruction-specific embeddings from six video and two audio instruction-tuned MLLMs. Experiments with 13 video task-specific instructions show that instruction-tuned video MLLMs significantly outperform non-instruction-tuned multimodal (by 15%) and unimodal models (by 20%). Our evaluation of MLLMs for both video and audio tasks using language-guided instructions shows clear disentanglement in task-specific representations from MLLMs, leading to precise differentiation of multimodal functional processing in the brain. We also find that MLLM layers align hierarchically with the brain, with early sensory areas showing strong alignment with early layers, while higher-level visual and language regions align more with middle to late layers. These findings provide clear evidence for the role of task-specific instructions in improving the alignment between brain activity and MLLMs, and open new avenues for mapping joint information processing in both the systems. We make the code publicly available [https://github.com/subbareddy248/mllm_videos].

Correlating instruction-tuning (in multimodal models) with vision-language processing (in the brain)

Transformer-based language models, though not explicitly trained to mimic brain recordings, have demonstrated surprising alignment with brain activity. Progress in these models-through increased size, instruction-tuning, and multimodality-has led to better representational alignment with neural data. Recently, a new class of instruction-tuned multimodal LLMs (MLLMs) have emerged, showing remarkable zero-shot capabilities in open-ended multimodal vision tasks. However, it is unknown whether MLLMs, when prompted with natural instructions, lead to better brain alignment and effectively capture instruction-specific representations. To address this, we first investigate brain alignment, i.e., measuring the degree of predictivity of neural visual activity using text output response embeddings from MLLMs as participants engage in watching natural scenes. Experiments with 10 different instructions show that MLLMs exhibit significantly better brain alignment than vision-only models and perform comparably to non-instruction-tuned multimodal models like CLIP. We also find that while these MLLMs are effective at generating high-quality responses suitable to the task-specific instructions, not all instructions are relevant for brain alignment. Further, by varying instructions, we make the MLLMs encode instruction-specific visual concepts related to the input image. This analysis shows that MLLMs effectively capture count-related and recognition-related concepts, demonstrating strong alignment with brain activity. Notably, the majority of the explained variance of the brain encoding models is shared between MLLM embeddings of image captioning and other instructions. These results suggest that enhancing MLLMs' ability to capture task-specific information could lead to better differentiation between various types of instructions, and thereby improving their precision in predicting brain responses.

Multi-modal brain encoding models for multi-modal stimuli

Despite participants engaging in unimodal stimuli, such as watching images or silent videos, recent work has demonstrated that multi-modal Transformer models can predict visual brain activity impressively well, even with incongruent modality representations. This raises the question of how accurately these multi-modal models can predict brain activity when participants are engaged in multi-modal stimuli. As these models grow increasingly popular, their use in studying neural activity provides insights into how our brains respond to such multi-modal naturalistic stimuli, i.e., where it separates and integrates information across modalities through a hierarchy of early sensory regions to higher cognition. We investigate this question by using multiple unimodal and two types of multi-modal models-cross-modal and jointly pretrained-to determine which type of model is more relevant to fMRI brain activity when participants are engaged in watching movies. We observe that both types of multi-modal models show improved alignment in several language and visual regions. This study also helps in identifying which brain regions process unimodal versus multi-modal information. We further investigate the contribution of each modality to multi-modal alignment by carefully removing unimodal features one by one from multi-modal representations, and find that there is additional information beyond the unimodal embeddings that is processed in the visual and language regions. Based on this investigation, we find that while for cross-modal models, their brain alignment is partially attributed to the video modality; for jointly pretrained models, it is partially attributed to both the video and audio modalities. This serves as a strong motivation for the neuroscience community to investigate the interpretability of these models for deepening our understanding of multi-modal information processing in brain.

EpMAN: Episodic Memory AttentioN for Generalizing to Longer Contexts

Recent advances in Large Language Models (LLMs) have yielded impressive successes on many language tasks. However, efficient processing of long contexts using LLMs remains a significant challenge. We introduce \textbf{EpMAN} -- a method for processing long contexts in an \textit{episodic memory} module while \textit{holistically attending to} semantically relevant context chunks. The output of \textit{episodic attention} is then used to reweigh the decoder's self-attention to the stored KV cache of the context during training and generation. When an LLM decoder is trained using \textbf{EpMAN}, its performance on multiple challenging single-hop long-context recall and question-answering benchmarks is found to be stronger and more robust across the range from 16k to 256k tokens than baseline decoders trained with self-attention, and popular retrieval-augmented generation frameworks.

Weighted Diversified Sampling for Efficient Data-Driven Single-Cell Gene-Gene Interaction Discovery

Gene-gene interactions play a crucial role in the manifestation of complex human diseases. Uncovering significant gene-gene interactions is a challenging task. Here, we present an innovative approach utilizing data-driven computational tools, leveraging an advanced Transformer model, to unearth noteworthy gene-gene interactions. Despite the efficacy of Transformer models, their parameter intensity presents a bottleneck in data ingestion, hindering data efficiency. To mitigate this, we introduce a novel weighted diversified sampling algorithm. This algorithm computes the diversity score of each data sample in just two passes of the dataset, facilitating efficient subset generation for interaction discovery. Our extensive experimentation demonstrates that by sampling a mere 1\% of the single-cell dataset, we achieve performance comparable to that of utilizing the entire dataset.

InfiniBench: A Comprehensive Benchmark for Large Multimodal Models in Very Long Video Understanding

Understanding long videos, ranging from tens of minutes to several hours, presents unique challenges in video comprehension. Despite the increasing importance of long-form video content, existing benchmarks primarily focus on shorter clips. To address this gap, we introduce InfiniBench a comprehensive benchmark for very long video understanding which presents 1)The longest video duration, averaging 76.34 minutes; 2) The largest number of question-answer pairs, 108.2K; 3) Diversity in questions that examine nine different skills and include both multiple-choice questions and open-ended questions; 4) Humancentric, as the video sources come from movies and daily TV shows, with specific human-level question designs such as Movie Spoiler Questions that require critical thinking and comprehensive understanding. Using InfiniBench, we comprehensively evaluate existing Large MultiModality Models (LMMs) on each skill, including the commercial model Gemini 1.5 Flash and the open-source models. The evaluation shows significant challenges in our benchmark.Our results show that the best AI models such Gemini struggles to perform well with 42.72% average accuracy and 2.71 out of 5 average score. We hope this benchmark will stimulate the LMMs community towards long video and human-level understanding. Our benchmark can be accessed at https://vision-cair.github.io/InfiniBench/