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Feb 11

Beyond Simple Concatenation: Fairly Assessing PLM Architectures for Multi-Chain Protein-Protein Interactions Prediction

Protein-protein interactions (PPIs) are fundamental to numerous cellular processes, and their characterization is vital for understanding disease mechanisms and guiding drug discovery. While protein language models (PLMs) have demonstrated remarkable success in predicting protein structure and function, their application to sequence-based PPI binding affinity prediction remains relatively underexplored. This gap is often attributed to the scarcity of high-quality, rigorously refined datasets and the reliance on simple strategies for concatenating protein representations. In this work, we address these limitations. First, we introduce a meticulously curated version of the PPB-Affinity dataset of a total of 8,207 unique protein-protein interaction entries, by resolving annotation inconsistencies and duplicate entries for multi-chain protein interactions. This dataset incorporates a stringent, less than or equal to 30%, sequence identity threshold to ensure robust splitting into training, validation, and test sets, minimizing data leakage. Second, we propose and systematically evaluate four architectures for adapting PLMs to PPI binding affinity prediction: embeddings concatenation (EC), sequences concatenation (SC), hierarchical pooling (HP), and pooled attention addition (PAD). These architectures were assessed using two training methods: full fine-tuning and a lightweight approach employing ConvBERT heads over frozen PLM features. Our comprehensive experiments across multiple leading PLMs (ProtT5, ESM2, Ankh, Ankh2, and ESM3) demonstrated that the HP and PAD architectures consistently outperform conventional concatenation methods, achieving up to 12% increase in terms of Spearman correlation. These results highlight the necessity of sophisticated architectural designs to fully exploit the capabilities of PLMs for nuanced PPI binding affinity prediction.

  • 8 authors
·
May 26, 2025 2

MoH: Multi-Head Attention as Mixture-of-Head Attention

In this work, we upgrade the multi-head attention mechanism, the core of the Transformer model, to improve efficiency while maintaining or surpassing the previous accuracy level. We show that multi-head attention can be expressed in the summation form. Drawing on the insight that not all attention heads hold equal significance, we propose Mixture-of-Head attention (MoH), a new architecture that treats attention heads as experts in the Mixture-of-Experts (MoE) mechanism. MoH has two significant advantages: First, MoH enables each token to select the appropriate attention heads, enhancing inference efficiency without compromising accuracy or increasing the number of parameters. Second, MoH replaces the standard summation in multi-head attention with a weighted summation, introducing flexibility to the attention mechanism and unlocking extra performance potential. Extensive experiments on ViT, DiT, and LLMs demonstrate that MoH outperforms multi-head attention by using only 50%-90% of the attention heads. Moreover, we demonstrate that pre-trained multi-head attention models, such as LLaMA3-8B, can be further continue-tuned into our MoH models. Notably, MoH-LLaMA3-8B achieves an average accuracy of 64.0% across 14 benchmarks, outperforming LLaMA3-8B by 2.4% by utilizing only 75% of the attention heads. We believe the proposed MoH is a promising alternative to multi-head attention and provides a strong foundation for developing advanced and efficient attention-based models.

  • 4 authors
·
Oct 15, 2024 2

Deconstructing Attention: Investigating Design Principles for Effective Language Modeling

The success of Transformer language models is widely credited to their dot-product attention mechanism, which interweaves a set of key design principles: mixing information across positions (enabling multi-token interactions), sequence-dependent activations (where attention weights adapt to each input), a specific mathematical form (dot-product similarities plus softmax weighting), and coupling of queries and keys to evolving hidden states (grounding attention in the current layer). However, the necessity of each of these principles remains largely untested. In this work, we systematically deconstruct attention by designing controlled variants that selectively relax these principles, applied both uniformly across all layers and in hybrid architectures where only some layers retain standard attention. Our empirical analysis reveals that mechanisms for mixing tokens are indispensable, as their absence collapses models to near-random behavior, while the exact mathematical form and sequence dependency can be substantially relaxed, especially when preserved in just a subset of layers. Surprisingly, even variants that fail in isolation can achieve robust performance when interleaved with standard attention, highlighting a cooperative effect. These findings deepen our understanding of what truly underpins attention's effectiveness and open new avenues for simplifying language models without sacrificing performance.

  • 3 authors
·
Oct 13, 2025 2

Rectified SpaAttn: Revisiting Attention Sparsity for Efficient Video Generation

Diffusion Transformers dominate video generation, but the quadratic complexity of attention computation introduces substantial latency. Attention sparsity reduces computational costs by focusing on critical tokens while ignoring non-critical tokens. However, existing methods suffer from severe performance degradation. In this paper, we revisit attention sparsity and reveal that existing methods induce systematic biases in attention allocation: (1) excessive focus on critical tokens amplifies their attention weights; (2) complete neglect of non-critical tokens causes the loss of relevant attention weights. To address these issues, we propose Rectified SpaAttn, which rectifies attention allocation with implicit full attention reference, thereby enhancing the alignment between sparse and full attention maps. Specifically: (1) for critical tokens, we show that their bias is proportional to the sparse attention weights, with the ratio governed by the amplified weights. Accordingly, we propose Isolated-Pooling Attention Reallocation, which calculates accurate rectification factors by reallocating multimodal pooled weights. (2) for non-critical tokens, recovering attention weights from the pooled query-key yields attention gains but also introduces pooling errors. Therefore, we propose Gain-Aware Pooling Rectification, which ensures that the rectified gain consistently surpasses the induced error. Moreover, we customize and integrate the Rectified SpaAttn kernel using Triton, achieving up to 3.33 and 2.08 times speedups on HunyuanVideo and Wan 2.1, respectively, while maintaining high generation quality. We release Rectified SpaAttn as open-source at https://github.com/BienLuky/Rectified-SpaAttn .

  • 5 authors
·
Nov 24, 2025

On the Existence and Behaviour of Secondary Attention Sinks

Attention sinks are tokens, often the beginning-of-sequence (BOS) token, that receive disproportionately high attention despite limited semantic relevance. In this work, we identify a class of attention sinks, which we term secondary sinks, that differ fundamentally from the sinks studied in prior works, which we term primary sinks. While prior works have identified that tokens other than BOS can sometimes become sinks, they were found to exhibit properties analogous to the BOS token. Specifically, they emerge at the same layer, persist throughout the network and draw a large amount of attention mass. Whereas, we find the existence of secondary sinks that arise primarily in middle layers and can persist for a variable number of layers, and draw a smaller, but still significant, amount of attention mass. Through extensive experiments across 11 model families, we analyze where these secondary sinks appear, their properties, how they are formed, and their impact on the attention mechanism. Specifically, we show that: (1) these sinks are formed by specific middle-layer MLP modules; these MLPs map token representations to vectors that align with the direction of the primary sink of that layer. (2) The ell_2-norm of these vectors determines the sink score of the secondary sink, and also the number of layers it lasts for, thereby leading to different impacts on the attention mechanisms accordingly. (3) The primary sink weakens in middle layers, coinciding with the emergence of secondary sinks. We observe that in larger-scale models, the location and lifetime of the sinks, together referred to as sink levels, appear in a more deterministic and frequent manner. Specifically, we identify three sink levels in QwQ-32B and six levels in Qwen3-14B.

  • 6 authors
·
Dec 22, 2025

See What You Are Told: Visual Attention Sink in Large Multimodal Models

Large multimodal models (LMMs) "see" images by leveraging the attention mechanism between text and visual tokens in the transformer decoder. Ideally, these models should focus on key visual information relevant to the text token. However, recent findings indicate that LMMs have an extraordinary tendency to consistently allocate high attention weights to specific visual tokens, even when these tokens are irrelevant to the corresponding text. In this study, we investigate the property behind the appearance of these irrelevant visual tokens and examine their characteristics. Our findings show that this behavior arises due to the massive activation of certain hidden state dimensions, which resembles the attention sink found in language models. Hence, we refer to this phenomenon as the visual attention sink. In particular, our analysis reveals that removing the irrelevant visual sink tokens does not impact model performance, despite receiving high attention weights. Consequently, we recycle the attention to these tokens as surplus resources, redistributing the attention budget to enhance focus on the image. To achieve this, we introduce Visual Attention Redistribution (VAR), a method that redistributes attention in image-centric heads, which we identify as innately focusing on visual information. VAR can be seamlessly applied across different LMMs to improve performance on a wide range of tasks, including general vision-language tasks, visual hallucination tasks, and vision-centric tasks, all without the need for additional training, models, or inference steps. Experimental results demonstrate that VAR enables LMMs to process visual information more effectively by adjusting their internal attention mechanisms, offering a new direction to enhancing the multimodal capabilities of LMMs.

  • 4 authors
·
Mar 5, 2025

Various Lengths, Constant Speed: Efficient Language Modeling with Lightning Attention

We present Lightning Attention, the first linear attention implementation that maintains a constant training speed for various sequence lengths under fixed memory consumption. Due to the issue with cumulative summation operations (cumsum), previous linear attention implementations cannot achieve their theoretical advantage in a casual setting. However, this issue can be effectively solved by utilizing different attention calculation strategies to compute the different parts of attention. Specifically, we split the attention calculation into intra-blocks and inter-blocks and use conventional attention computation for intra-blocks and linear attention kernel tricks for inter-blocks. This eliminates the need for cumsum in the linear attention calculation. Furthermore, a tiling technique is adopted through both forward and backward procedures to take full advantage of the GPU hardware. To enhance accuracy while preserving efficacy, we introduce TransNormerLLM (TNL), a new architecture that is tailored to our lightning attention. We conduct rigorous testing on standard and self-collected datasets with varying model sizes and sequence lengths. TNL is notably more efficient than other language models. In addition, benchmark results indicate that TNL performs on par with state-of-the-art LLMs utilizing conventional transformer structures. The source code is released at github.com/OpenNLPLab/TransnormerLLM.

  • 6 authors
·
May 27, 2024 2

In-Context Linear Regression Demystified: Training Dynamics and Mechanistic Interpretability of Multi-Head Softmax Attention

We study how multi-head softmax attention models are trained to perform in-context learning on linear data. Through extensive empirical experiments and rigorous theoretical analysis, we demystify the emergence of elegant attention patterns: a diagonal and homogeneous pattern in the key-query (KQ) weights, and a last-entry-only and zero-sum pattern in the output-value (OV) weights. Remarkably, these patterns consistently appear from gradient-based training starting from random initialization. Our analysis reveals that such emergent structures enable multi-head attention to approximately implement a debiased gradient descent predictor -- one that outperforms single-head attention and nearly achieves Bayesian optimality up to proportional factor. Furthermore, compared to linear transformers, the softmax attention readily generalizes to sequences longer than those seen during training. We also extend our study to scenarios with non-isotropic covariates and multi-task linear regression. In the former, multi-head attention learns to implement a form of pre-conditioned gradient descent. In the latter, we uncover an intriguing regime where the interplay between head number and task number triggers a superposition phenomenon that efficiently resolves multi-task in-context learning. Our results reveal that in-context learning ability emerges from the trained transformer as an aggregated effect of its architecture and the underlying data distribution, paving the way for deeper understanding and broader applications of in-context learning.

  • 4 authors
·
Mar 16, 2025

Unveiling and Harnessing Hidden Attention Sinks: Enhancing Large Language Models without Training through Attention Calibration

Attention is a fundamental component behind the remarkable achievements of large language models (LLMs). However, our current understanding of the attention mechanism, especially regarding how attention distributions are established, remains limited. Inspired by recent studies that explore the presence of attention sink in the initial token, which receives disproportionately large attention scores despite their lack of semantic importance, this work delves deeper into this phenomenon. We aim to provide a more profound understanding of the existence of attention sinks within LLMs and to uncover ways to enhance the achievable accuracy of LLMs by directly optimizing the attention distributions, without the need for weight finetuning. Specifically, this work begins with comprehensive visualizations of the attention distributions in LLMs during inference across various inputs and tasks. Based on these visualizations, to the best of our knowledge, we are the first to discover that (1) attention sinks occur not only at the start of sequences but also within later tokens of the input, and (2) not all attention sinks have a positive impact on the achievable accuracy of LLMs. Building upon our findings, we propose a training-free Attention Calibration Technique (ACT) that automatically optimizes the attention distributions on the fly during inference in an input-adaptive manner. Extensive experiments validate that ACT consistently enhances the accuracy of various LLMs across different applications. Specifically, ACT achieves an average improvement of up to 7.30% in accuracy across different datasets when applied to Llama-30B. Our code is available at https://github.com/GATECH-EIC/ACT.

  • 6 authors
·
Jun 22, 2024

PowerAttention: Exponentially Scaling of Receptive Fields for Effective Sparse Attention

Large Language Models (LLMs) face efficiency bottlenecks due to the quadratic complexity of the attention mechanism when processing long contexts. Sparse attention methods offer a promising solution, but existing approaches often suffer from incomplete effective context and/or require complex implementation of pipeline. We present a comprehensive analysis of sparse attention for autoregressive LLMs from the respective of receptive field, recognize the suboptimal nature of existing methods for expanding the receptive field, and introduce PowerAttention, a novel sparse attention design that facilitates effective and complete context extension through the theoretical analysis. PowerAttention achieves exponential receptive field growth in d-layer LLMs, allowing each output token to attend to 2^d tokens, ensuring completeness and continuity of the receptive field. Experiments demonstrate that PowerAttention outperforms existing static sparse attention methods by 5sim 40%, especially on tasks demanding long-range dependencies like Passkey Retrieval and RULER, while maintaining a comparable time complexity to sliding window attention. Efficiency evaluations further highlight PowerAttention's superior speedup in both prefilling and decoding phases compared with dynamic sparse attentions and full attention (3.0times faster on 128K context), making it a highly effective and user-friendly solution for processing long sequences in LLMs.

  • 11 authors
·
Mar 5, 2025

Fixing Imbalanced Attention to Mitigate In-Context Hallucination of Large Vision-Language Model

Large Vision Language Models (LVLMs) have demonstrated remarkable capabilities in understanding and describing visual content, achieving state-of-the-art performance across various vision-language tasks. However, these models frequently exhibit hallucination behavior, where they generate descriptions containing objects or details absent in the input image. Our work investigates this phenomenon by analyzing attention patterns across transformer layers and heads, revealing that hallucinations often stem from progressive degradation of visual grounding in deeper layers. We propose a novel attention modification approach that combines selective token emphasis and head-specific modulation to maintain visual grounding throughout the generation process. Our method introduces two key components: (1) a dual-stream token selection mechanism that identifies and prioritizes both locally informative and spatially significant visual tokens, and (2) an attention head-specific modulation strategy that differentially amplifies visual information processing based on measured visual sensitivity of individual attention heads. Through extensive experimentation on the MSCOCO dataset, we demonstrate that our approach reduces hallucination rates by up to 62.3\% compared to baseline models while maintaining comparable task performance. Our analysis reveals that selectively modulating tokens across attention heads with varying levels of visual sensitivity can significantly improve visual grounding without requiring model retraining.

  • 5 authors
·
Jan 21, 2025 2

Kinetics: Rethinking Test-Time Scaling Laws

We rethink test-time scaling laws from a practical efficiency perspective, revealing that the effectiveness of smaller models is significantly overestimated. Prior work, grounded in compute-optimality, overlooks critical memory access bottlenecks introduced by inference-time strategies (e.g., Best-of-N, long CoTs). Our holistic analysis, spanning models from 0.6B to 32B parameters, reveals a new Kinetics Scaling Law that better guides resource allocation by incorporating both computation and memory access costs. Kinetics Scaling Law suggests that test-time compute is more effective when used on models above a threshold than smaller ones. A key reason is that in TTS, attention, rather than parameter count, emerges as the dominant cost factor. Motivated by this, we propose a new scaling paradigm centered on sparse attention, which lowers per-token cost and enables longer generations and more parallel samples within the same resource budget. Empirically, we show that sparse attention models consistently outperform dense counterparts, achieving over 60 points gains in low-cost regimes and over 5 points gains in high-cost regimes for problem-solving accuracy on AIME, encompassing evaluations on state-of-the-art MoEs. These results suggest that sparse attention is essential for realizing the full potential of test-time scaling because, unlike training, where parameter scaling saturates, test-time accuracy continues to improve through increased generation. The code is available at https://github.com/Infini-AI-Lab/Kinetics.

  • 6 authors
·
Jun 5, 2025 1

FuseMax: Leveraging Extended Einsums to Optimize Attention Accelerator Design

Attention for transformers is a critical workload that has recently received significant "attention" as a target for custom acceleration. Yet, while prior work succeeds in reducing attention's memory-bandwidth requirements, it creates load imbalance between attention operators (resulting in severe compute under-utilization) and requires on-chip memory that scales with sequence length (which is expected to grow over time). This paper ameliorates these issues, enabling attention with nearly 100% compute utilization, no off-chip memory traffic bottlenecks, and on-chip buffer size requirements that are independent of sequence length. The main conceptual contribution is to use a recently proposed abstraction -- the cascade of Einsums -- to describe, formalize and taxonomize the space of attention algorithms that appear in the literature. In particular, we show how Einsum cascades can be used to infer non-trivial lower bounds on the number of passes a kernel must take through its input data, which has implications for either required on-chip buffer capacity or memory traffic. We show how this notion can be used to meaningfully divide the space of attention algorithms into several categories and use these categories to inform our design process. Based on the above characterization, we propose FuseMax -- a novel mapping of attention onto a spatial array-style architecture. On attention, in an iso-area comparison, FuseMax achieves an average 6.7times speedup over the prior state-of-the-art FLAT while using 79% of the energy. Similarly, on the full end-to-end transformer inference, FuseMax achieves an average 5.3times speedup over FLAT using 83% of the energy.

  • 6 authors
·
Jun 15, 2024

Capturing Gaze Shifts for Guidance: Cross-Modal Fusion Enhancement for VLM Hallucination Mitigation

Vision language models (VLMs) often generate hallucination, i.e., content that cannot be substantiated by either textual or visual inputs. Prior work primarily attributes this to over-reliance on linguistic prior knowledge rather than visual inputs. Some methods attempt to mitigate hallucination by amplifying visual token attention proportionally to their attention scores. However, these methods overlook the visual attention sink problem, where attention is frequently misallocated to task-irrelevant visual regions, and neglect cross-modal fusion balance by enhancing only visual attention without adjusting attention to the user query. This can result in amplifying incorrect areas while failing to properly interpret the user query. To address these challenges, we propose a simple yet effective method called Gaze Shift-Guided Cross-modal Fusion Enhancement (GIFT). GIFT pre-computes a holistic visual saliency map by tracking positive changes in visual attention, or "gaze shifts", during user query comprehension, and leverages this map to amplify attention to both salient visual information and the user query at each decoding step. This reduces the impact of visual attention sink, as irrelevant tokens exhibit minimal shifts, while ensuring balanced cross-modal fusion for well-integrated representation. Extensive experiments show that GIFT effectively mitigates hallucination in VLMs across both generative and classification tasks, achieving up to 20.7% improvement over greedy decoding, while maintaining general vision-language performance with low computational overhead.

  • 4 authors
·
Oct 24, 2025

Lightning Attention-2: A Free Lunch for Handling Unlimited Sequence Lengths in Large Language Models

Linear attention is an efficient attention mechanism that has recently emerged as a promising alternative to conventional softmax attention. With its ability to process tokens in linear computational complexities, linear attention, in theory, can handle sequences of unlimited length without sacrificing speed, i.e., maintaining a constant training speed for various sequence lengths with a fixed memory consumption. However, due to the issue with cumulative summation (cumsum), current linear attention algorithms cannot demonstrate their theoretical advantage in a causal setting. In this paper, we present Lightning Attention-2, the first linear attention implementation that enables linear attention to realize its theoretical computational benefits. To achieve this, we leverage the thought of tiling, separately handling the intra-block and inter-block components in linear attention calculation. Specifically, we utilize the conventional attention computation mechanism for the intra-blocks and apply linear attention kernel tricks for the inter-blocks. A tiling technique is adopted through both forward and backward procedures to take full advantage of the GPU hardware. We implement our algorithm in Triton to make it IO-aware and hardware-friendly. Various experiments are conducted on different model sizes and sequence lengths. Lightning Attention-2 retains consistent training and inference speed regardless of input sequence length and is significantly faster than other attention mechanisms. The source code is available at https://github.com/OpenNLPLab/lightning-attention.

  • 6 authors
·
Jan 9, 2024 3

Long-Context Modeling with Dynamic Hierarchical Sparse Attention for On-Device LLMs

The quadratic cost of attention hinders the scalability of long-context LLMs, especially in resource-constrained settings. Existing static sparse methods such as sliding windows or global tokens utilizes the sparsity of attention to reduce the cost of attention, but poorly adapts to the content-dependent variations in attention due to their staticity. While previous work has proposed several dynamic approaches to improve flexibility, they still depend on predefined templates or heuristic mechanisms. Such strategies reduce generality and prune tokens that remain contextually important, limiting their accuracy across diverse tasks. To tackle these bottlenecks of existing methods for long-context modeling, we introduce Dynamic Hierarchical Sparse Attention (DHSA), a data-driven framework that dynamically predicts attention sparsity online without retraining. Our proposed DHSA adaptively segments sequences into variable-length chunks, then computes chunk representations by aggregating the token embeddings within each chunk. To avoid the bias introduced by varying chunk lengths, we apply length-normalized aggregation that scales the averaged embeddings by the square root of the chunk size. Finally, DHSA upsamples the chunk-level similarity scores to token level similarities to calculate importance scores that determine which token-level interactions should be preserved. Our experiments on Gemma2 with Needle-in-a-Haystack Test and LongBench show that DHSA matches dense attention in accuracy, while reducing prefill latency by 20-60% and peak memory usage by 35%. Compared to other representative baselines such as block sparse attention, DHSA achieves consistently higher accuracy (6-18% relative gains) with comparable or lower cost, offering an efficient and adaptable solution for long-context on-device LLMs.

  • 4 authors
·
Oct 28, 2025

MoA: Mixture of Sparse Attention for Automatic Large Language Model Compression

Sparse attention can effectively mitigate the significant memory and throughput demands of Large Language Models (LLMs) in long contexts. Existing methods typically employ a uniform sparse attention mask, applying the same sparse pattern across different attention heads and input lengths. However, this uniform approach fails to capture the diverse attention patterns inherent in LLMs, ignoring their distinct accuracy-latency trade-offs. To address this challenge, we propose the Mixture of Attention (MoA), which automatically tailors distinct sparse attention configurations to different heads and layers. MoA constructs and navigates a search space of various attention patterns and their scaling rules relative to input sequence lengths. It profiles the model, evaluates potential configurations, and pinpoints the optimal sparse attention compression plan. MoA adapts to varying input sizes, revealing that some attention heads expand their focus to accommodate longer sequences, while other heads consistently concentrate on fixed-length local contexts. Experiments show that MoA increases the effective context length by 3.9times with the same average attention span, boosting retrieval accuracy by 1.5-7.1times over the uniform-attention baseline across Vicuna-7B, Vicuna-13B, and Llama3-8B models. Moreover, MoA narrows the capability gaps between sparse and dense models, reducing the maximum relative performance drop from 9%-36% to within 5% across two long-context understanding benchmarks. MoA achieves a 1.2-1.4times GPU memory reduction and boosts decode throughput by 5.5-6.7 times for 7B and 13B dense models on a single GPU, with minimal impact on performance.

  • 13 authors
·
Jun 21, 2024 4

Improving Multi-Subject Consistency in Open-Domain Image Generation with Isolation and Reposition Attention

Training-free diffusion models have achieved remarkable progress in generating multi-subject consistent images within open-domain scenarios. The key idea of these methods is to incorporate reference subject information within the attention layer. However, existing methods still obtain suboptimal performance when handling numerous subjects. This paper reveals the two primary issues contributing to this deficiency. Firstly, there is undesired interference among different subjects within the target image. Secondly, tokens tend to reference nearby tokens, which reduces the effectiveness of the attention mechanism when there is a significant positional difference between subjects in reference and target images. To address these challenges, we propose a training-free diffusion model with Isolation and Reposition Attention, named IR-Diffusion. Specifically, Isolation Attention ensures that multiple subjects in the target image do not reference each other, effectively eliminating the subject fusion. On the other hand, Reposition Attention involves scaling and repositioning subjects in both reference and target images to the same position within the images. This ensures that subjects in the target image can better reference those in the reference image, thereby maintaining better consistency. Extensive experiments demonstrate that the proposed methods significantly enhance multi-subject consistency, outperforming all existing methods in open-domain scenarios.

  • 7 authors
·
Nov 28, 2024

Pooling And Attention: What Are Effective Designs For LLm-Based Embedding Models?

The significant advancements of Large Language Models (LLMs) in generative tasks have led to a growing body of work exploring LLM-based embedding models. While these models, employing different pooling and attention strategies, have achieved state-of-the-art performance on public embedding benchmarks, questions still arise about what constitutes an effective design for LLM-based embedding models. However, these models are often trained on different datasets, using different LLM base models or training settings. Moreover, evaluations on public embedding benchmarks often fail to report statistical significance, making it difficult to determine which designs truly contribute to final performance. This complicates the process for practitioners seeking optimal training recipes for LLM-based embedding models. In this study, we conduct a large-scale experiment by training a series of LLM-based embedding models using the same training data and base model but differing in their pooling and attention strategies. The results show that there is no one-size-fits-all solution: while bidirectional attention and an additional trainable pooling layer outperform in text similarity and information retrieval tasks, they do not significantly surpass simpler designs like EOS-last token pooling and default causal attention in clustering and classification tasks. Furthermore, we propose a new pooling strategy, Multi-Layers Trainable Pooling, which transforms the outputs of all hidden layers, rather than just the last layer, using a cross-attention network. This method proves to be statistically superior in text similarity and retrieval tasks compared to existing pooling methods. Overall, this paper sheds light on effective training strategies for LLM-based embedding models.

  • 2 authors
·
Sep 4, 2024

Understanding Transformers through the Lens of Pavlovian Conditioning

Transformer architectures have revolutionized artificial intelligence (AI) through their attention mechanisms, yet the computational principles underlying their success remain opaque. We present a novel theoretical framework that reinterprets the core computation of attention as Pavlovian conditioning. Our model finds a direct mathematical analogue in linear attention, which simplifies the analysis of the underlying associative process. We demonstrate that attention's queries, keys, and values can be mapped to the three elements of classical conditioning: test stimuli that probe associations, conditional stimuli (CS) that serve as retrieval cues, and unconditional stimuli (US) that contain response information. Through this lens, we suggest that each attention operation constructs a transient associative memory via a Hebbian rule, where CS-US pairs form dynamic associations that test stimuli can later retrieve. Our framework yields several theoretical insights grounded in this linearized model: (1) a capacity theorem showing that attention heads can store O(d_k) associations before interference degrades retrieval; (2) an error propagation analysis revealing fundamental architectural trade-offs of balancing model depth, width, and head redundancy to maintain reliability; and (3) an understanding of how biologically plausible learning rules could enhance transformer architectures. By establishing this deep connection, we suggest that the success of modern AI may stem not from architectural novelty alone, but from implementing computational principles that biology optimized over millions of years of evolution.

  • 1 authors
·
Aug 5, 2025

FlexPrefill: A Context-Aware Sparse Attention Mechanism for Efficient Long-Sequence Inference

Large language models (LLMs) encounter computational challenges during long-sequence inference, especially in the attention pre-filling phase, where the complexity grows quadratically with the prompt length. Previous efforts to mitigate these challenges have relied on fixed sparse attention patterns or identifying sparse attention patterns based on limited cases. However, these methods lacked the flexibility to efficiently adapt to varying input demands. In this paper, we introduce FlexPrefill, a Flexible sparse Pre-filling mechanism that dynamically adjusts sparse attention patterns and computational budget in real-time to meet the specific requirements of each input and attention head. The flexibility of our method is demonstrated through two key innovations: 1) Query-Aware Sparse Pattern Determination: By measuring Jensen-Shannon divergence, this component adaptively switches between query-specific diverse attention patterns and predefined attention patterns. 2) Cumulative-Attention Based Index Selection: This component dynamically selects query-key indexes to be computed based on different attention patterns, ensuring the sum of attention scores meets a predefined threshold. FlexPrefill adaptively optimizes the sparse pattern and sparse ratio of each attention head based on the prompt, enhancing efficiency in long-sequence inference tasks. Experimental results show significant improvements in both speed and accuracy over prior methods, providing a more flexible and efficient solution for LLM inference.

  • 5 authors
·
Feb 28, 2025

Interpreting and Improving Large Language Models in Arithmetic Calculation

Large language models (LLMs) have demonstrated remarkable potential across numerous applications and have shown an emergent ability to tackle complex reasoning tasks, such as mathematical computations. However, even for the simplest arithmetic calculations, the intrinsic mechanisms behind LLMs remain mysterious, making it challenging to ensure reliability. In this work, we delve into uncovering a specific mechanism by which LLMs execute calculations. Through comprehensive experiments, we find that LLMs frequently involve a small fraction (< 5%) of attention heads, which play a pivotal role in focusing on operands and operators during calculation processes. Subsequently, the information from these operands is processed through multi-layer perceptrons (MLPs), progressively leading to the final solution. These pivotal heads/MLPs, though identified on a specific dataset, exhibit transferability across different datasets and even distinct tasks. This insight prompted us to investigate the potential benefits of selectively fine-tuning these essential heads/MLPs to boost the LLMs' computational performance. We empirically find that such precise tuning can yield notable enhancements on mathematical prowess, without compromising the performance on non-mathematical tasks. Our work serves as a preliminary exploration into the arithmetic calculation abilities inherent in LLMs, laying a solid foundation to reveal more intricate mathematical tasks.

  • 7 authors
·
Sep 3, 2024

Soft Injection of Task Embeddings Outperforms Prompt-Based In-Context Learning

In-Context Learning (ICL) enables Large Language Models (LLMs) to perform tasks by conditioning on input-output examples in the prompt, without requiring any update in model parameters. While widely adopted, it remains unclear whether prompting with multiple examples is the most effective and efficient way to convey task information. In this work, we propose Soft Injection of task embeddings. The task embeddings are constructed only once using few-shot ICL prompts and repeatedly used during inference. Soft injection is performed by softly mixing task embeddings with attention head activations using pre-optimized mixing parameters, referred to as soft head-selection parameters. This method not only allows a desired task to be performed without in-prompt demonstrations but also significantly outperforms existing ICL approaches while reducing memory usage and compute cost at inference time. An extensive evaluation is performed across 57 tasks and 12 LLMs, spanning four model families of sizes from 4B to 70B. Averaged across 57 tasks, our method outperforms 10-shot ICL by 10.2%-14.3% across 12 LLMs. Additional analyses show that our method also serves as an insightful tool for analyzing task-relevant roles of attention heads, revealing that task-relevant head positions selected by our method transfer across similar tasks but not across dissimilar ones -- underscoring the task-specific nature of head functionality. Our soft injection method opens a new paradigm for reducing prompt length and improving task performance by shifting task conditioning from the prompt space to the activation space.

  • 2 authors
·
Jul 28, 2025

TidalDecode: Fast and Accurate LLM Decoding with Position Persistent Sparse Attention

Large language models (LLMs) have driven significant advancements across diverse NLP tasks, with long-context models gaining prominence for handling extended inputs. However, the expanding key-value (KV) cache size required by Transformer architectures intensifies the memory constraints, particularly during the decoding phase, creating a significant bottleneck. Existing sparse attention mechanisms designed to address this bottleneck have two limitations: (1) they often fail to reliably identify the most relevant tokens for attention, and (2) they overlook the spatial coherence of token selection across consecutive Transformer layers, which can lead to performance degradation and substantial overhead in token selection. This paper introduces TidalDecode, a simple yet effective algorithm and system for fast and accurate LLM decoding through position persistent sparse attention. TidalDecode leverages the spatial coherence of tokens selected by existing sparse attention methods and introduces a few token selection layers that perform full attention to identify the tokens with the highest attention scores, while all other layers perform sparse attention with the pre-selected tokens. This design enables TidalDecode to substantially reduce the overhead of token selection for sparse attention without sacrificing the quality of the generated results. Evaluation on a diverse set of LLMs and tasks shows that TidalDecode closely matches the generative performance of full attention methods while reducing the LLM decoding latency by up to 2.1x.

  • 5 authors
·
Oct 7, 2024 2

UPLiFT: Efficient Pixel-Dense Feature Upsampling with Local Attenders

The space of task-agnostic feature upsampling has emerged as a promising area of research to efficiently create denser features from pre-trained visual backbones. These methods act as a shortcut to achieve dense features for a fraction of the cost by learning to map low-resolution features to high-resolution versions. While early works in this space used iterative upsampling approaches, more recent works have switched to cross-attention-based methods, which risk falling into the same efficiency scaling problems of the backbones they are upsampling. In this work, we demonstrate that iterative upsampling methods can still compete with cross-attention-based methods; moreover, they can achieve state-of-the-art performance with lower inference costs. We propose UPLiFT, an architecture for Universal Pixel-dense Lightweight Feature Transforms. We also propose an efficient Local Attender operator to overcome the limitations of prior iterative feature upsampling methods. This operator uses an alternative attentional pooling formulation defined fully locally. We show that our Local Attender allows UPLiFT to maintain stable features throughout upsampling, enabling state-of-the-art performance with lower inference costs than existing pixel-dense feature upsamplers. In addition, we apply UPLiFT to generative downstream tasks and show that it achieves competitive performance with state-of-the-art Coupled Flow Matching models for VAE feature upsampling. Altogether, UPLiFT offers a versatile and efficient approach to creating denser features.

Gated Attention for Large Language Models: Non-linearity, Sparsity, and Attention-Sink-Free

Gating mechanisms have been widely utilized, from early models like LSTMs and Highway Networks to recent state space models, linear attention, and also softmax attention. Yet, existing literature rarely examines the specific effects of gating. In this work, we conduct comprehensive experiments to systematically investigate gating-augmented softmax attention variants. Specifically, we perform a comprehensive comparison over 30 variants of 15B Mixture-of-Experts (MoE) models and 1.7B dense models trained on a 3.5 trillion token dataset. Our central finding is that a simple modification-applying a head-specific sigmoid gate after the Scaled Dot-Product Attention (SDPA)-consistently improves performance. This modification also enhances training stability, tolerates larger learning rates, and improves scaling properties. By comparing various gating positions and computational variants, we attribute this effectiveness to two key factors: (1) introducing non-linearity upon the low-rank mapping in the softmax attention, and (2) applying query-dependent sparse gating scores to modulate the SDPA output. Notably, we find this sparse gating mechanism mitigates 'attention sink' and enhances long-context extrapolation performance, and we also release related https://github.com/qiuzh20/gated_attention{codes} and https://huggingface.co/QwQZh/gated_attention{models} to facilitate future research.

  • 13 authors
·
May 10, 2025 1

Native Sparse Attention: Hardware-Aligned and Natively Trainable Sparse Attention

Long-context modeling is crucial for next-generation language models, yet the high computational cost of standard attention mechanisms poses significant computational challenges. Sparse attention offers a promising direction for improving efficiency while maintaining model capabilities. We present NSA, a Natively trainable Sparse Attention mechanism that integrates algorithmic innovations with hardware-aligned optimizations to achieve efficient long-context modeling. NSA employs a dynamic hierarchical sparse strategy, combining coarse-grained token compression with fine-grained token selection to preserve both global context awareness and local precision. Our approach advances sparse attention design with two key innovations: (1) We achieve substantial speedups through arithmetic intensity-balanced algorithm design, with implementation optimizations for modern hardware. (2) We enable end-to-end training, reducing pretraining computation without sacrificing model performance. As shown in Figure 1, experiments show the model pretrained with NSA maintains or exceeds Full Attention models across general benchmarks, long-context tasks, and instruction-based reasoning. Meanwhile, NSA achieves substantial speedups over Full Attention on 64k-length sequences across decoding, forward propagation, and backward propagation, validating its efficiency throughout the model lifecycle.

deepseek-ai DeepSeek
·
Feb 16, 2025 10

Flowformer: Linearizing Transformers with Conservation Flows

Transformers based on the attention mechanism have achieved impressive success in various areas. However, the attention mechanism has a quadratic complexity, significantly impeding Transformers from dealing with numerous tokens and scaling up to bigger models. Previous methods mainly utilize the similarity decomposition and the associativity of matrix multiplication to devise linear-time attention mechanisms. They avoid degeneration of attention to a trivial distribution by reintroducing inductive biases such as the locality, thereby at the expense of model generality and expressiveness. In this paper, we linearize Transformers free from specific inductive biases based on the flow network theory. We cast attention as the information flow aggregated from the sources (values) to the sinks (results) through the learned flow capacities (attentions). Within this framework, we apply the property of flow conservation into attention and propose the Flow-Attention mechanism of linear complexity. By respectively conserving the incoming flow of sinks for source competition and the outgoing flow of sources for sink allocation, Flow-Attention inherently generates informative attentions without using specific inductive biases. Empowered by the Flow-Attention, Flowformer yields strong performance in linear time for wide areas, including long sequence, time series, vision, natural language, and reinforcement learning. The code and settings are available at this repository: https://github.com/thuml/Flowformer.

  • 5 authors
·
Feb 13, 2022

BAM! Just Like That: Simple and Efficient Parameter Upcycling for Mixture of Experts

The Mixture of Experts (MoE) framework has become a popular architecture for large language models due to its superior performance over dense models. However, training MoEs from scratch in a large-scale regime is prohibitively expensive. Existing methods mitigate this by pre-training multiple dense expert models independently and using them to initialize an MoE. This is done by using experts' feed-forward network (FFN) to initialize the MoE's experts while merging other parameters. However, this method limits the reuse of dense model parameters to only the FFN layers, thereby constraining the advantages when "upcycling" these models into MoEs. We propose BAM (Branch-Attend-Mix), a simple yet effective method that addresses this shortcoming. BAM makes full use of specialized dense models by not only using their FFN to initialize the MoE layers but also leveraging experts' attention parameters fully by initializing them into a soft-variant of Mixture of Attention (MoA) layers. We explore two methods for upcycling attention parameters: 1) initializing separate attention experts from dense models including all attention parameters for the best model performance; and 2) sharing key and value parameters across all experts to facilitate for better inference efficiency. To further improve efficiency, we adopt a parallel attention transformer architecture to MoEs, which allows the attention experts and FFN experts to be computed concurrently. Our experiments on seed models ranging from 590 million to 2 billion parameters demonstrate that BAM surpasses baselines in both perplexity and downstream task performance, within the same computational and data constraints.

  • 11 authors
·
Aug 15, 2024 3

Task-KV: Task-aware KV Cache Optimization via Semantic Differentiation of Attention Heads

KV cache is a widely used acceleration technique for large language models (LLMs) inference. However, its memory requirement grows rapidly with input length. Previous studies have reduced the size of KV cache by either removing the same number of unimportant tokens for all attention heads or by allocating differentiated KV cache budgets for pre-identified attention heads. However, due to the importance of attention heads varies across different tasks, the pre-identified attention heads fail to adapt effectively to various downstream tasks. To address this issue, we propose Task-KV, a method that leverages the semantic differentiation of attention heads to allocate differentiated KV cache budgets across various tasks. We demonstrate that attention heads far from the semantic center (called heterogeneous heads) make an significant contribution to task outputs and semantic understanding. In contrast, other attention heads play the role of aggregating important information and focusing reasoning. Task-KV allocates full KV cache budget to heterogeneous heads to preserve comprehensive semantic information, while reserving a small number of recent tokens and attention sinks for non-heterogeneous heads. Furthermore, we innovatively introduce middle activations to preserve key contextual information aggregated from non-heterogeneous heads. To dynamically perceive semantic differences among attention heads, we design a semantic separator to distinguish heterogeneous heads from non-heterogeneous ones based on their distances from the semantic center. Experimental results on multiple benchmarks and different model architectures demonstrate that Task-KV significantly outperforms existing baseline methods.

  • 3 authors
·
Jan 25, 2025

Attention Illuminates LLM Reasoning: The Preplan-and-Anchor Rhythm Enables Fine-Grained Policy Optimization

The reasoning pattern of Large language models (LLMs) remains opaque, and Reinforcement learning (RL) typically applies uniform credit across an entire generation, blurring the distinction between pivotal and routine steps. This work positions attention as a privileged substrate that renders the internal logic of LLMs legible, not merely as a byproduct of computation, but as a mechanistic blueprint of reasoning itself. We first distinguish attention heads between locally and globally focused information processing and reveal that locally focused heads produce a sawtooth pattern near the diagonal indicating phrasal chunks, while globally focused heads expose tokens that exert broad downstream influence over future tokens. We formalize these with two metrics: 1) Windowed Average Attention Distance, which measures the extent of backward attention within a clipped window; 2) Future Attention Influence, which quantifies a token's global importance as the average attention it receives from subsequent tokens. Taken together, these signals reveal a recurring preplan-and-anchor mechanism, where the model first performs a long-range contextual reference to generate an introductory token, which is immediately followed by or coincides with a semantic anchor token that organizes subsequent reasoning. Leveraging these insights, we introduce three novel RL strategies that dynamically perform targeted credit assignment to critical nodes (preplan tokens, anchor tokens, and their temporal coupling) and show consistent performance gains across various reasoning tasks. By aligning optimization with the model's intrinsic reasoning rhythm, we aim to transform opaque optimization into an actionable structure-aware process, hoping to offer a potential step toward more transparent and effective optimization of LLM reasoning.

alibaba-inc alibaba-inc
·
Oct 15, 2025 2

When Attention Sink Emerges in Language Models: An Empirical View

Language Models (LMs) assign significant attention to the first token, even if it is not semantically important, which is known as attention sink. This phenomenon has been widely adopted in applications such as streaming/long context generation, KV cache optimization, inference acceleration, model quantization, and others. Despite its widespread use, a deep understanding of attention sink in LMs is still lacking. In this work, we first demonstrate that attention sinks exist universally in LMs with various inputs, even in small models. Furthermore, attention sink is observed to emerge during the LM pre-training, motivating us to investigate how optimization, data distribution, loss function, and model architecture in LM pre-training influence its emergence. We highlight that attention sink emerges after effective optimization on sufficient training data. The sink position is highly correlated with the loss function and data distribution. Most importantly, we find that attention sink acts more like key biases, storing extra attention scores, which could be non-informative and not contribute to the value computation. We also observe that this phenomenon (at least partially) stems from tokens' inner dependence on attention scores as a result of softmax normalization. After relaxing such dependence by replacing softmax attention with other attention operations, such as sigmoid attention without normalization, attention sinks do not emerge in LMs up to 1B parameters. The code is available at https://github.com/sail-sg/Attention-Sink.

  • 8 authors
·
Oct 14, 2024

Circuit Component Reuse Across Tasks in Transformer Language Models

Recent work in mechanistic interpretability has shown that behaviors in language models can be successfully reverse-engineered through circuit analysis. A common criticism, however, is that each circuit is task-specific, and thus such analysis cannot contribute to understanding the models at a higher level. In this work, we present evidence that insights (both low-level findings about specific heads and higher-level findings about general algorithms) can indeed generalize across tasks. Specifically, we study the circuit discovered in Wang et al. (2022) for the Indirect Object Identification (IOI) task and 1.) show that it reproduces on a larger GPT2 model, and 2.) that it is mostly reused to solve a seemingly different task: Colored Objects (Ippolito & Callison-Burch, 2023). We provide evidence that the process underlying both tasks is functionally very similar, and contains about a 78% overlap in in-circuit attention heads. We further present a proof-of-concept intervention experiment, in which we adjust four attention heads in middle layers in order to 'repair' the Colored Objects circuit and make it behave like the IOI circuit. In doing so, we boost accuracy from 49.6% to 93.7% on the Colored Objects task and explain most sources of error. The intervention affects downstream attention heads in specific ways predicted by their interactions in the IOI circuit, indicating that this subcircuit behavior is invariant to the different task inputs. Overall, our results provide evidence that it may yet be possible to explain large language models' behavior in terms of a relatively small number of interpretable task-general algorithmic building blocks and computational components.

  • 3 authors
·
Oct 12, 2023

AttentionInfluence: Adopting Attention Head Influence for Weak-to-Strong Pretraining Data Selection

Recently, there has been growing interest in collecting reasoning-intensive pretraining data to improve LLMs' complex reasoning ability. Prior approaches typically rely on supervised classifiers to identify such data, which requires labeling by humans or LLMs, often introducing domain-specific biases. Due to the attention heads being crucial to in-context reasoning, we propose AttentionInfluence, a simple yet effective, training-free method without supervision signal. Our approach enables a small pretrained language model to act as a strong data selector through a simple attention head masking operation. Specifically, we identify retrieval heads and compute the loss difference when masking these heads. We apply AttentionInfluence to a 1.3B-parameter dense model to conduct data selection on the SmolLM corpus of 241B tokens, and mix the SmolLM corpus with the selected subset comprising 73B tokens to pretrain a 7B-parameter dense model using 1T training tokens and WSD learning rate scheduling. Our experimental results demonstrate substantial improvements, ranging from 1.4pp to 3.5pp, across several knowledge-intensive and reasoning-heavy benchmarks (i.e., MMLU, MMLU-Pro, AGIEval-en, GSM8K, and HumanEval). This demonstrates an effective weak-to-strong scaling property, with small models improving the final performance of larger models-offering a promising and scalable path for reasoning-centric data selection.

  • 4 authors
·
May 12, 2025 2

Robustifying Token Attention for Vision Transformers

Despite the success of vision transformers (ViTs), they still suffer from significant drops in accuracy in the presence of common corruptions, such as noise or blur. Interestingly, we observe that the attention mechanism of ViTs tends to rely on few important tokens, a phenomenon we call token overfocusing. More critically, these tokens are not robust to corruptions, often leading to highly diverging attention patterns. In this paper, we intend to alleviate this overfocusing issue and make attention more stable through two general techniques: First, our Token-aware Average Pooling (TAP) module encourages the local neighborhood of each token to take part in the attention mechanism. Specifically, TAP learns average pooling schemes for each token such that the information of potentially important tokens in the neighborhood can adaptively be taken into account. Second, we force the output tokens to aggregate information from a diverse set of input tokens rather than focusing on just a few by using our Attention Diversification Loss (ADL). We achieve this by penalizing high cosine similarity between the attention vectors of different tokens. In experiments, we apply our methods to a wide range of transformer architectures and improve robustness significantly. For example, we improve corruption robustness on ImageNet-C by 2.4% while simultaneously improving accuracy by 0.4% based on state-of-the-art robust architecture FAN. Also, when finetuning on semantic segmentation tasks, we improve robustness on CityScapes-C by 2.4% and ACDC by 3.1%.

  • 3 authors
·
Mar 20, 2023