Daily Papers

Recently, there has been a surge of interest in Multi-Target Cross-Domain Recommendation (MTCDR), which aims to enhance recommendation performance across multiple domains simultaneously. Existing MTCDR methods primarily rely on domain-shared entities (\eg users or items) to fuse and transfer cross-domain knowledge, which may be unavailable in non-overlapped recommendation scenarios. Some studies model user preferences and item features as domain-sharable semantic representations, which can be utilized to tackle the MTCDR task. Nevertheless, they often require extensive auxiliary data for pre-training. Developing more effective solutions for MTCDR remains an important area for further exploration. Inspired by recent advancements in generative recommendation, this paper introduces GMC, a generative paradigm-based approach for multi-target cross-domain recommendation. The core idea of GMC is to leverage semantically quantized discrete item identifiers as a medium for integrating multi-domain knowledge within a unified generative model. GMC first employs an item tokenizer to generate domain-shared semantic identifiers for each item, and then formulates item recommendation as a next-token generation task by training a domain-unified sequence-to-sequence model. To further leverage the domain information to enhance performance, we incorporate a domain-aware contrastive loss into the semantic identifier learning, and perform domain-specific fine-tuning on the unified recommender. Extensive experiments on five public datasets demonstrate the effectiveness of GMC compared to a range of baseline methods.

Managing long sequences has become an important and necessary feature for large language models (LLMs). However, it is still an open question of how to comprehensively and systematically evaluate the long-sequence capability of LLMs. One of the reasons is that conventional and widely-used benchmarks mainly consist of short sequences. In this paper, we propose M4LE, a Multi-ability, Multi-range, Multi-task, Multi-domain benchmark for Long-context Evaluation. M4LE is based on a diverse NLP task pool comprising 36 NLP datasets, 11 task types and 12 domains. To alleviate the scarcity of tasks with naturally long sequences and incorporate multiple-ability assessment, we propose an automatic approach (but with negligible human annotations) to convert short-sequence tasks into a unified long-sequence scenario where LLMs have to identify single or multiple relevant spans in long contexts based on explicit or semantic hints. Specifically, the scenario includes five different types of abilities: (1) explicit single-span; (2) semantic single-span; (3) explicit multiple-span; (4) semantic multiple-span; and (5) global context understanding. The resulting samples in M4LE are evenly distributed from 1k to 8k input length. We conducted a systematic evaluation on 11 well-established LLMs, especially those optimized for long-sequence inputs. Our results reveal that: 1) Current LLMs struggle to understand long context, particularly when tasks require multiple-span attention. 2) Semantic retrieval task is more difficult for competent LLMs. 3) Models fine-tuned on longer text with position interpolation have comparable performance to those using Neural Tangent Kernel (NTK) aware scaling methods without fine-tuning. We make our benchmark publicly available to encourage future research in this challenging area.

Generative models have excelled in RGB synthesis, but real-world applications require RGBA manipulation. This has led to a fragmented landscape: specialized, single-task models handle alpha but lack versatility, while unified multi-task frameworks are confined to the RGB domain. To bridge this critical gap, we propose OmniAlpha, the first unified, multi-task generative framework for sequence-to-sequence RGBA image generation and editing. Its architecture features MSRoPE-BiL, a novel RoPE method with a bi-directionally extendable layer axis for its Diffusion Transformer (DiT) backbone, enabling the concurrent processing of multiple input and target RGBA layers. To power this framework, we introduce AlphaLayers, a new dataset of 1,000 high-quality, multi-layer triplets, built via a novel automated synthesis and filter pipeline. Jointly training OmniAlpha on this dataset across a comprehensive suite of 21 diverse tasks, extensive experiments demonstrate that our unified approach consistently outperforms strong, specialized baselines. Most notably, OmniAlpha achieves a dramatic 84.8% relative reduction in SAD for mask-free matting on AIM-500 and wins over 90% of human preferences in layer-conditioned completion. Our work proves that a unified, multi-task model can learn a superior shared representation for RGBA, paving the way for more powerful, layer-aware generative systems.

Large language models (LLMs) have shown great promise for autonomous driving. However, discretizing numbers into tokens limits precise numerical reasoning, fails to reflect the positional significance of digits in the training objective, and makes it difficult to achieve both decoding efficiency and numerical precision. These limitations affect both the processing of sensor measurements and the generation of precise control commands, creating a fundamental barrier for deploying LLM-based autonomous driving systems. In this paper, we introduce DriveCode, a novel numerical encoding method that represents numbers as dedicated embeddings rather than discrete text tokens. DriveCode employs a number projector to map numbers into the language model's hidden space, enabling seamless integration with visual and textual features in a unified multimodal sequence. Evaluated on OmniDrive, DriveGPT4, and DriveGPT4-V2 datasets, DriveCode demonstrates superior performance in trajectory prediction and control signal generation, confirming its effectiveness for LLM-based autonomous driving systems.

In this paper, we present UniPose, a unified cross-modality pose prior propagation method for weakly supervised 3D human pose estimation (HPE) using unannotated single-view RGB-D sequences (RGB, depth, and point cloud data). UniPose transfers 2D HPE annotations from large-scale RGB datasets (e.g., MS COCO) to the 3D domain via self-supervised learning on easily acquired RGB-D sequences, eliminating the need for labor-intensive 3D keypoint annotations. This approach bridges the gap between 2D and 3D domains without suffering from issues related to multi-view camera calibration or synthetic-to-real data shifts. During training, UniPose leverages off-the-shelf 2D pose estimations as weak supervision for point cloud networks, incorporating spatial-temporal constraints like body symmetry and joint motion. The 2D-to-3D back-projection loss and cross-modality interaction further enhance this process. By treating the point cloud network's 3D HPE results as pseudo ground truth, our anchor-to-joint prediction method performs 3D lifting on RGB and depth networks, making it more robust against inaccuracies in 2D HPE results compared to state-of-the-art methods. Experiments on CMU Panoptic and ITOP datasets show that UniPose achieves comparable performance to fully supervised methods. Incorporating large-scale unlabeled data (e.g., NTU RGB+D 60) enhances its performance under challenging conditions, demonstrating its potential for practical applications. Our proposed 3D lifting method also achieves state-of-the-art results.

Training keyphrase generation (KPG) models require a large amount of annotated data, which can be prohibitively expensive and often limited to specific domains. In this study, we first demonstrate that large distribution shifts among different domains severely hinder the transferability of KPG models. We then propose a three-stage pipeline, which gradually guides KPG models' learning focus from general syntactical features to domain-related semantics, in a data-efficient manner. With Domain-general Phrase pre-training, we pre-train Sequence-to-Sequence models with generic phrase annotations that are widely available on the web, which enables the models to generate phrases in a wide range of domains. The resulting model is then applied in the Transfer Labeling stage to produce domain-specific pseudo keyphrases, which help adapt models to a new domain. Finally, we fine-tune the model with limited data with true labels to fully adapt it to the target domain. Our experiment results show that the proposed process can produce good-quality keyphrases in new domains and achieve consistent improvements after adaptation with limited in-domain annotated data. All code and datasets are available at https://github.com/memray/OpenNMT-kpg-release.

Sequence modeling is a crucial area across various domains, including Natural Language Processing (NLP), speech recognition, time series forecasting, music generation, and bioinformatics. Recurrent Neural Networks (RNNs) and Long Short Term Memory Networks (LSTMs) have historically dominated sequence modeling tasks like Machine Translation, Named Entity Recognition (NER), etc. However, the advancement of transformers has led to a shift in this paradigm, given their superior performance. Yet, transformers suffer from O(N^2) attention complexity and challenges in handling inductive bias. Several variations have been proposed to address these issues which use spectral networks or convolutions and have performed well on a range of tasks. However, they still have difficulty in dealing with long sequences. State Space Models(SSMs) have emerged as promising alternatives for sequence modeling paradigms in this context, especially with the advent of S4 and its variants, such as S4nd, Hippo, Hyena, Diagnol State Spaces (DSS), Gated State Spaces (GSS), Linear Recurrent Unit (LRU), Liquid-S4, Mamba, etc. In this survey, we categorize the foundational SSMs based on three paradigms namely, Gating architectures, Structural architectures, and Recurrent architectures. This survey also highlights diverse applications of SSMs across domains such as vision, video, audio, speech, language (especially long sequence modeling), medical (including genomics), chemical (like drug design), recommendation systems, and time series analysis, including tabular data. Moreover, we consolidate the performance of SSMs on benchmark datasets like Long Range Arena (LRA), WikiText, Glue, Pile, ImageNet, Kinetics-400, sstv2, as well as video datasets such as Breakfast, COIN, LVU, and various time series datasets. The project page for Mamba-360 work is available on this webpage.https://github.com/badripatro/mamba360.

A central goal of sequence modeling is designing a single principled model that can address sequence data across a range of modalities and tasks, particularly on long-range dependencies. Although conventional models including RNNs, CNNs, and Transformers have specialized variants for capturing long dependencies, they still struggle to scale to very long sequences of 10000 or more steps. A promising recent approach proposed modeling sequences by simulating the fundamental state space model (SSM) \( x'(t) = Ax(t) + Bu(t), y(t) = Cx(t) + Du(t) \), and showed that for appropriate choices of the state matrix \( A \), this system could handle long-range dependencies mathematically and empirically. However, this method has prohibitive computation and memory requirements, rendering it infeasible as a general sequence modeling solution. We propose the Structured State Space sequence model (S4) based on a new parameterization for the SSM, and show that it can be computed much more efficiently than prior approaches while preserving their theoretical strengths. Our technique involves conditioning \( A \) with a low-rank correction, allowing it to be diagonalized stably and reducing the SSM to the well-studied computation of a Cauchy kernel. S4 achieves strong empirical results across a diverse range of established benchmarks, including (i) 91\% accuracy on sequential CIFAR-10 with no data augmentation or auxiliary losses, on par with a larger 2-D ResNet, (ii) substantially closing the gap to Transformers on image and language modeling tasks, while performing generation 60times faster (iii) SoTA on every task from the Long Range Arena benchmark, including solving the challenging Path-X task of length 16k that all prior work fails on, while being as efficient as all competitors.

Modern sequence models (e.g., Transformers, linear RNNs, etc.) emerged as dominant backbones of recent deep learning frameworks, mainly due to their efficiency, representational power, and/or ability to capture long-range dependencies. Adopting these sequence models for graph-structured data has recently gained popularity as the alternative to Message Passing Neural Networks (MPNNs). There is, however, a lack of a common foundation about what constitutes a good graph sequence model, and a mathematical description of the benefits and deficiencies in adopting different sequence models for learning on graphs. To this end, we first present Graph Sequence Model (GSM), a unifying framework for adopting sequence models for graphs, consisting of three main steps: (1) Tokenization, which translates the graph into a set of sequences; (2) Local Encoding, which encodes local neighborhoods around each node; and (3) Global Encoding, which employs a scalable sequence model to capture long-range dependencies within the sequences. This framework allows us to understand, evaluate, and compare the power of different sequence model backbones in graph tasks. Our theoretical evaluations of the representation power of Transformers and modern recurrent models through the lens of global and local graph tasks show that there are both negative and positive sides for both types of models. Building on this observation, we present GSM++, a fast hybrid model that uses the Hierarchical Affinity Clustering (HAC) algorithm to tokenize the graph into hierarchical sequences, and then employs a hybrid architecture of Transformer to encode these sequences. Our theoretical and experimental results support the design of GSM++, showing that GSM++ outperforms baselines in most benchmark evaluations.

Supervised fine-tuning (SFT) is widely used to align large language models (LLMs) with information extraction (IE) tasks, such as named entity recognition (NER). However, annotating such fine-grained labels and training domain-specific models is costly. Existing works typically train a unified model across multiple domains, but such approaches lack adaptation and scalability since not all training data benefits target domains and scaling trained models remains challenging. We propose the SaM framework, which dynamically Selects and Merges expert models at inference time. Specifically, for a target domain, we select domain-specific experts pre-trained on existing domains based on (i) domain similarity to the target domain and (ii) performance on sampled instances, respectively. The experts are then merged to create task-specific models optimized for the target domain. By dynamically merging experts beneficial to target domains, we improve generalization across various domains without extra training. Additionally, experts can be added or removed conveniently, leading to great scalability. Extensive experiments on multiple benchmarks demonstrate our framework's effectiveness, which outperforms the unified model by an average of 10%. We further provide insights into potential improvements, practical experience, and extensions of our framework.

This paper introduces Unified Language-driven Zero-shot Domain Adaptation (ULDA), a novel task setting that enables a single model to adapt to diverse target domains without explicit domain-ID knowledge. We identify the constraints in the existing language-driven zero-shot domain adaptation task, particularly the requirement for domain IDs and domain-specific models, which may restrict flexibility and scalability. To overcome these issues, we propose a new framework for ULDA, consisting of Hierarchical Context Alignment (HCA), Domain Consistent Representation Learning (DCRL), and Text-Driven Rectifier (TDR). These components work synergistically to align simulated features with target text across multiple visual levels, retain semantic correlations between different regional representations, and rectify biases between simulated and real target visual features, respectively. Our extensive empirical evaluations demonstrate that this framework achieves competitive performance in both settings, surpassing even the model that requires domain-ID, showcasing its superiority and generalization ability. The proposed method is not only effective but also maintains practicality and efficiency, as it does not introduce additional computational costs during inference. Our project page is https://senqiaoyang.com/project/ULDA .

Sequences have become first class citizens in supervised learning thanks to the resurgence of recurrent neural networks. Many complex tasks that require mapping from or to a sequence of observations can now be formulated with the sequence-to-sequence (seq2seq) framework which employs the chain rule to efficiently represent the joint probability of sequences. In many cases, however, variable sized inputs and/or outputs might not be naturally expressed as sequences. For instance, it is not clear how to input a set of numbers into a model where the task is to sort them; similarly, we do not know how to organize outputs when they correspond to random variables and the task is to model their unknown joint probability. In this paper, we first show using various examples that the order in which we organize input and/or output data matters significantly when learning an underlying model. We then discuss an extension of the seq2seq framework that goes beyond sequences and handles input sets in a principled way. In addition, we propose a loss which, by searching over possible orders during training, deals with the lack of structure of output sets. We show empirical evidence of our claims regarding ordering, and on the modifications to the seq2seq framework on benchmark language modeling and parsing tasks, as well as two artificial tasks -- sorting numbers and estimating the joint probability of unknown graphical models.

Transformers are the dominant architecture for sequence modeling, but there is growing interest in models that use a fixed-size latent state that does not depend on the sequence length, which we refer to as "generalized state space models" (GSSMs). In this paper we show that while GSSMs are promising in terms of inference-time efficiency, they are limited compared to transformer models on tasks that require copying from the input context. We start with a theoretical analysis of the simple task of string copying and prove that a two layer transformer can copy strings of exponential length while GSSMs are fundamentally limited by their fixed-size latent state. Empirically, we find that transformers outperform GSSMs in terms of efficiency and generalization on synthetic tasks that require copying the context. Finally, we evaluate pretrained large language models and find that transformer models dramatically outperform state space models at copying and retrieving information from context. Taken together, these results suggest a fundamental gap between transformers and GSSMs on tasks of practical interest.

Large Language Models (LLMs) have become ubiquitous across various domains, transforming the way we interact with information and conduct research. However, most high-performing LLMs remain confined behind proprietary walls, hindering scientific progress. Most open-source LLMs, on the other hand, are limited in their ability to support longer sequence lengths, which is a key requirement for many tasks that require inference over an input context. To address this, we have trained XGen, a series of 7B parameter models on up to 8K sequence length for up to 1.5T tokens. We have also finetuned the XGen models on public-domain instructional data, creating their instruction-tuned counterparts (XGen-Inst). We open-source our models for both research advancements and commercial applications. Our evaluation on standard benchmarks shows that XGen models achieve comparable or better results when compared with state-of-the-art open-source LLMs. Our targeted evaluation on long sequence modeling tasks shows the benefits of our 8K-sequence models over 2K-sequence open-source LLMs.

Unified multimodal large language models (MLLMs) aim to integrate multimodal understanding and generation abilities through a single framework. Despite their versatility, existing open-source unified models exhibit performance gaps against domain-specific architectures. To bridge this gap, we present Nexus-Gen, a unified model that synergizes the language reasoning capabilities of LLMs with the image synthesis power of diffusion models. To align the embedding space of the LLM and diffusion model, we conduct a dual-phase alignment training process. (1) The autoregressive LLM learns to predict image embeddings conditioned on multimodal inputs, while (2) the vision decoder is trained to reconstruct high-fidelity images from these embeddings. During training the LLM, we identified a critical discrepancy between the autoregressive paradigm's training and inference phases, where error accumulation in continuous embedding space severely degrades generation quality. To avoid this issue, we introduce a prefilled autoregression strategy that prefills input sequence with position-embedded special tokens instead of continuous embeddings. Through dual-phase training, Nexus-Gen has developed the integrated capability to comprehensively address the image understanding, generation and editing tasks. All models, datasets, and codes are published at https://github.com/modelscope/Nexus-Gen.git to facilitate further advancements across the field.

Sequence models lie at the heart of modern deep learning. However, rapid advancements have produced a diversity of seemingly unrelated architectures, such as Transformers and recurrent alternatives. In this paper, we introduce a unifying framework to understand and derive these sequence models, inspired by the empirical importance of associative recall, the capability to retrieve contextually relevant tokens. We formalize associative recall as a two-step process, memorization and retrieval, casting memorization as a regression problem. Layers that combine these two steps perform associative recall via ``test-time regression'' over its input tokens. Prominent layers, including linear attention, state-space models, fast-weight programmers, online learners, and softmax attention, arise as special cases defined by three design choices: the regression weights, the regressor function class, and the test-time optimization algorithm. Our approach clarifies how linear attention fails to capture inter-token correlations and offers a mathematical justification for the empirical effectiveness of query-key normalization in softmax attention. Further, it illuminates unexplored regions within the design space, which we use to derive novel higher-order generalizations of softmax attention. Beyond unification, our work bridges sequence modeling with classic regression methods, a field with extensive literature, paving the way for developing more powerful and theoretically principled architectures.

Recent advancements in sequence modeling have led to the emergence of Structured State Space Models (SSMs) as an efficient alternative to Recurrent Neural Networks (RNNs) and Transformers, addressing challenges in long-range dependency modeling and computational efficiency. While RNNs suffer from vanishing gradients and sequential inefficiencies, and Transformers face quadratic complexity, SSMs leverage structured recurrence and state-space representations to achieve superior long-sequence processing with linear or near-linear complexity. This survey provides a comprehensive review of SSMs, tracing their evolution from the foundational S4 model to its successors like Mamba, Simplified Structured State Space Sequence Model (S5), and Jamba, highlighting their improvements in computational efficiency, memory optimization, and inference speed. By comparing SSMs with traditional sequence models across domains such as natural language processing (NLP), speech recognition, vision, and time-series forecasting, we demonstrate their advantages in handling long-range dependencies while reducing computational overhead. Despite their potential, challenges remain in areas such as training optimization, hybrid modeling, and interpretability. This survey serves as a structured guide for researchers and practitioners, detailing the advancements, trade-offs, and future directions of SSM-based architectures in AI and deep learning.

The most fundamental capability of modern AI methods such as Large Language Models (LLMs) is the ability to predict the next token in a long sequence of tokens, known as ``sequence modeling." Although the Transformers model is the current dominant approach to sequence modeling, its quadratic computational cost with respect to sequence length is a significant drawback. State-space models (SSMs) offer a promising alternative due to their linear decoding efficiency and high parallelizability during training. However, existing SSMs often rely on seemingly ad hoc linear recurrence designs. In this work, we explore SSM design through the lens of online learning, conceptualizing SSMs as meta-modules for specific online learning problems. This approach links SSM design to formulating precise online learning objectives, with state transition rules derived from optimizing these objectives. Based on this insight, we introduce a novel deep SSM architecture based on the implicit update for optimizing an online regression objective. Our experimental results show that our models outperform state-of-the-art SSMs, including the Mamba model, on standard sequence modeling benchmarks and language modeling tasks.

Recurrent neural networks (RNNs) sequentially process data by updating their state with each new data point, and have long been the de facto choice for sequence modeling tasks. However, their inherently sequential computation makes them slow to train. Feed-forward and convolutional architectures have recently been shown to achieve superior results on some sequence modeling tasks such as machine translation, with the added advantage that they concurrently process all inputs in the sequence, leading to easy parallelization and faster training times. Despite these successes, however, popular feed-forward sequence models like the Transformer fail to generalize in many simple tasks that recurrent models handle with ease, e.g. copying strings or even simple logical inference when the string or formula lengths exceed those observed at training time. We propose the Universal Transformer (UT), a parallel-in-time self-attentive recurrent sequence model which can be cast as a generalization of the Transformer model and which addresses these issues. UTs combine the parallelizability and global receptive field of feed-forward sequence models like the Transformer with the recurrent inductive bias of RNNs. We also add a dynamic per-position halting mechanism and find that it improves accuracy on several tasks. In contrast to the standard Transformer, under certain assumptions, UTs can be shown to be Turing-complete. Our experiments show that UTs outperform standard Transformers on a wide range of algorithmic and language understanding tasks, including the challenging LAMBADA language modeling task where UTs achieve a new state of the art, and machine translation where UTs achieve a 0.9 BLEU improvement over Transformers on the WMT14 En-De dataset.

We analyze automatic speech recognition (ASR) modeling choices under domain mismatch, comparing classic modular and novel sequence-to-sequence (seq2seq) architectures. Across the different ASR architectures, we examine a spectrum of modeling choices, including label units, context length, and topology. To isolate language domain effects from acoustic variation, we synthesize target domain audio using a text-to-speech system trained on LibriSpeech. We incorporate target domain n-gram and neural language models for domain adaptation without retraining the acoustic model. To our knowledge, this is the first controlled comparison of optimized ASR systems across state-of-the-art architectures under domain shift, offering insights into their generalization. The results show that, under domain shift, rather than the decoder architecture choice or the distinction between classic modular and novel seq2seq models, it is specific modeling choices that influence performance.

Unified generation of sequence and structure for scientific data (e.g., materials, molecules, proteins) is a critical task. Existing approaches primarily rely on either autoregressive sequence models or diffusion models, each offering distinct advantages and facing notable limitations. Autoregressive models, such as GPT, Llama, and Phi-4, have demonstrated remarkable success in natural language generation and have been extended to multimodal tasks (e.g., image, video, and audio) using advanced encoders like VQ-VAE to represent complex modalities as discrete sequences. However, their direct application to scientific domains is challenging due to the high precision requirements and the diverse nature of scientific data. On the other hand, diffusion models excel at generating high-dimensional scientific data, such as protein, molecule, and material structures, with remarkable accuracy. Yet, their inability to effectively model sequences limits their potential as general-purpose multimodal foundation models. To address these challenges, we propose UniGenX, a unified framework that combines autoregressive next-token prediction with conditional diffusion models. This integration leverages the strengths of autoregressive models to ease the training of conditional diffusion models, while diffusion-based generative heads enhance the precision of autoregressive predictions. We validate the effectiveness of UniGenX on material and small molecule generation tasks, achieving a significant leap in state-of-the-art performance for material crystal structure prediction and establishing new state-of-the-art results for small molecule structure prediction, de novo design, and conditional generation. Notably, UniGenX demonstrates significant improvements, especially in handling long sequences for complex structures, showcasing its efficacy as a versatile tool for scientific data generation.

Neural models that do not rely on pre-training have excelled in the keyphrase generation task with large annotated datasets. Meanwhile, new approaches have incorporated pre-trained language models (PLMs) for their data efficiency. However, there lacks a systematic study of how the two types of approaches compare and how different design choices can affect the performance of PLM-based models. To fill in this knowledge gap and facilitate a more informed use of PLMs for keyphrase extraction and keyphrase generation, we present an in-depth empirical study. Formulating keyphrase extraction as sequence labeling and keyphrase generation as sequence-to-sequence generation, we perform extensive experiments in three domains. After showing that PLMs have competitive high-resource performance and state-of-the-art low-resource performance, we investigate important design choices including in-domain PLMs, PLMs with different pre-training objectives, using PLMs with a parameter budget, and different formulations for present keyphrases. Further results show that (1) in-domain BERT-like PLMs can be used to build strong and data-efficient keyphrase generation models; (2) with a fixed parameter budget, prioritizing model depth over width and allocating more layers in the encoder leads to better encoder-decoder models; and (3) introducing four in-domain PLMs, we achieve a competitive performance in the news domain and the state-of-the-art performance in the scientific domain.

Sequence-to-sequence models are commonly trained via maximum likelihood estimation (MLE). However, standard MLE training considers a word-level objective, predicting the next word given the previous ground-truth partial sentence. This procedure focuses on modeling local syntactic patterns, and may fail to capture long-range semantic structure. We present a novel solution to alleviate these issues. Our approach imposes global sequence-level guidance via new supervision based on optimal transport, enabling the overall characterization and preservation of semantic features. We further show that this method can be understood as a Wasserstein gradient flow trying to match our model to the ground truth sequence distribution. Extensive experiments are conducted to validate the utility of the proposed approach, showing consistent improvements over a wide variety of NLP tasks, including machine translation, abstractive text summarization, and image captioning.

Conversational modeling is an important task in natural language understanding and machine intelligence. Although previous approaches exist, they are often restricted to specific domains (e.g., booking an airline ticket) and require hand-crafted rules. In this paper, we present a simple approach for this task which uses the recently proposed sequence to sequence framework. Our model converses by predicting the next sentence given the previous sentence or sentences in a conversation. The strength of our model is that it can be trained end-to-end and thus requires much fewer hand-crafted rules. We find that this straightforward model can generate simple conversations given a large conversational training dataset. Our preliminary results suggest that, despite optimizing the wrong objective function, the model is able to converse well. It is able extract knowledge from both a domain specific dataset, and from a large, noisy, and general domain dataset of movie subtitles. On a domain-specific IT helpdesk dataset, the model can find a solution to a technical problem via conversations. On a noisy open-domain movie transcript dataset, the model can perform simple forms of common sense reasoning. As expected, we also find that the lack of consistency is a common failure mode of our model.

We introduce Delayed Streams Modeling (DSM), a flexible formulation for streaming, multimodal sequence-to-sequence learning. Sequence-to-sequence generation is often cast in an offline manner, where the model consumes the complete input sequence before generating the first output timestep. Alternatively, streaming sequence-to-sequence rely on learning a policy for choosing when to advance on the input stream, or write to the output stream. DSM instead models already time-aligned streams with a decoder-only language model. By moving the alignment to a pre-processing step,and introducing appropriate delays between streams, DSM provides streaming inference of arbitrary output sequences, from any input combination, making it applicable to many sequence-to-sequence problems. In particular, given text and audio streams, automatic speech recognition (ASR) corresponds to the text stream being delayed, while the opposite gives a text-to-speech (TTS) model. We perform extensive experiments for these two major sequence-to-sequence tasks, showing that DSM provides state-of-the-art performance and latency while supporting arbitrary long sequences, being even competitive with offline baselines. Code, samples and demos are available at https://github.com/kyutai-labs/delayed-streams-modeling

Despite the extensive success of pretrained language models as encoders for building NLP systems, they haven't seen prominence as decoders for sequence generation tasks. We explore the question of whether these models can be adapted to be used as universal decoders. To be considered "universal," a decoder must have an implicit representation for any target sentence s, such that it can recover that sentence exactly when conditioned on its representation. For large transformer-based language models trained on vast amounts of English text, we investigate whether such representations can be easily discovered using standard optimization methods. We present and compare three representation injection techniques for transformer-based models and three accompanying methods which map sentences to and from this representation space. Experiments show that not only do representations exist for sentences from a variety of genres. More importantly, without needing complex optimization algorithms, our methods recover these sentences almost perfectly without fine-tuning the underlying language model at all.

Domain-specific embedding models have shown promise for applications that require specialized semantic understanding, such as coding agents and financial retrieval systems, often achieving higher performance gains than general models. However, state-of-the-art embedding models are typically based on LLMs, which contain billions of parameters, making deployment challenging in resource-constrained environments. Model compression through pruning offers a promising solution, but existing pruning methods treat all parameters uniformly, failing to distinguish between general semantic representations and domain-specific patterns, leading to suboptimal pruning decisions. Thus, we propose GAPrune, a pruning framework that addresses this challenge by considering both domain importance and preserving general linguistic foundation. Our method uses Fisher Information to measure importance and general-domain gradient alignment to assess parameter behavior, then combines these signals using our Domain Alignment Importance (DAI) scoring. Lower DAI scores indicate that the parameter is either less important for the domain task or creates conflicts between domain and general objectives. Experiments on two domain benchmarks, FinMTEB and ChemTEB, show that GAPrune maintains performance within 2.5% of dense models in one-shot pruning at 50% sparsity, while outperforming all baselines. With retraining in 100 steps, GAPrune achieves +4.51% improvement on FinMTEB and +1.73% on ChemTEB, demonstrating that our pruning strategy not only preserves but enhances domain-specific capabilities. Our findings demonstrate that principled pruning strategies can achieve model compression and enhanced domain specialization, providing the research community with a new approach for development.

The advancement of transformer neural networks has significantly elevated the capabilities of sentence similarity models, particularly in creating effective vector representations of natural language inputs. However, these models face notable challenges in domain-specific contexts, especially in highly specialized scientific sub-fields. Traditional methods often struggle in this regime, either overgeneralizing similarities within a niche or being overly sensitive to minor differences, resulting in inaccurate text classification and subpar vector representation. In an era where retrieval augmentation and search are increasingly crucial, precise and concise numerical representations are essential. In this paper, we target this issue by assembling niche datasets using co-citations as a similarity metric, focusing on biomedical domains. We employ two key strategies for fine-tuning state-of-the-art models: 1. Domain-specific Fine-Tuning, which tailors pretrained models to a single domain, and 2. Universal Applicability with Mixture of Experts (MoE), adapting pretrained models with enforced routing for multiple domains simultaneously. Our training approach emphasizes the use of abstracts for faster training, incorporating Multiple Negative Rankings loss for efficient contrastive learning. Notably, our MoE variants, equipped with N experts, achieve the efficacy of N individual models, heralding a new era of versatile, One-Size-Fits-All transformer networks for various tasks. This methodology marks significant advancements in scientific text classification metrics and holds promise for enhancing vector database search and compilation.

Large language models (LLMs) have significantly advanced the field of natural language processing (NLP), providing a highly useful, task-agnostic foundation for a wide range of applications. However, directly applying LLMs to solve sophisticated problems in specific domains meets many hurdles, caused by the heterogeneity of domain data, the sophistication of domain knowledge, the uniqueness of domain objectives, and the diversity of the constraints (e.g., various social norms, cultural conformity, religious beliefs, and ethical standards in the domain applications). Domain specification techniques are key to make large language models disruptive in many applications. Specifically, to solve these hurdles, there has been a notable increase in research and practices conducted in recent years on the domain specialization of LLMs. This emerging field of study, with its substantial potential for impact, necessitates a comprehensive and systematic review to better summarize and guide ongoing work in this area. In this article, we present a comprehensive survey on domain specification techniques for large language models, an emerging direction critical for large language model applications. First, we propose a systematic taxonomy that categorizes the LLM domain-specialization techniques based on the accessibility to LLMs and summarizes the framework for all the subcategories as well as their relations and differences to each other. Second, we present an extensive taxonomy of critical application domains that can benefit dramatically from specialized LLMs, discussing their practical significance and open challenges. Last, we offer our insights into the current research status and future trends in this area.

The design choices in the Transformer attention mechanism, including weak inductive bias and quadratic computational complexity, have limited its application for modeling long sequences. In this paper, we introduce Mega, a simple, theoretically grounded, single-head gated attention mechanism equipped with (exponential) moving average to incorporate inductive bias of position-aware local dependencies into the position-agnostic attention mechanism. We further propose a variant of Mega that offers linear time and space complexity yet yields only minimal quality loss, by efficiently splitting the whole sequence into multiple chunks with fixed length. Extensive experiments on a wide range of sequence modeling benchmarks, including the Long Range Arena, neural machine translation, auto-regressive language modeling, and image and speech classification, show that Mega achieves significant improvements over other sequence models, including variants of Transformers and recent state space models.

Language models for biological and chemical sequences enable crucial applications such as drug discovery, protein engineering, and precision medicine. Currently, these language models are predominantly based on Transformer architectures. While Transformers have yielded impressive results, their quadratic runtime dependency on the sequence length complicates their use for long genomic sequences and in-context learning on proteins and chemical sequences. Recently, the recurrent xLSTM architecture has been shown to perform favorably compared to Transformers and modern state-space model (SSM) architectures in the natural language domain. Similar to SSMs, xLSTMs have a linear runtime dependency on the sequence length and allow for constant-memory decoding at inference time, which makes them prime candidates for modeling long-range dependencies in biological and chemical sequences. In this work, we tailor xLSTM towards these domains and propose a suite of architectural variants called Bio-xLSTM. Extensive experiments in three large domains, genomics, proteins, and chemistry, were performed to assess xLSTM's ability to model biological and chemical sequences. The results show that models based on Bio-xLSTM a) can serve as proficient generative models for DNA, protein, and chemical sequences, b) learn rich representations for those modalities, and c) can perform in-context learning for proteins and small molecules.

The dominant text generation models compose the output by sequentially selecting words from a fixed vocabulary. In this paper, we formulate text generation as progressively copying text segments (e.g., words or phrases) from an existing text collection. We compute the contextualized representations of meaningful text segments and index them using efficient vector search toolkits. The task of text generation is then decomposed into a series of copy-and-paste operations: at each time step, we seek suitable text spans from the text collection rather than selecting from a standalone vocabulary. Experiments on the standard language modeling benchmark (WikiText-103) show that our approach achieves better generation quality according to both automatic and human evaluations. Besides, its inference efficiency is comparable to token-level autoregressive models thanks to the reduction of decoding steps. We also show that our approach allows for effective domain adaptation by simply switching to domain-specific text collection without extra training. Finally, we observe that our approach attains additional performance gains by simply scaling up to larger text collections, again without further training.Our source codes are publicly available at \url{https://github.com/gmftbyGMFTBY/Copyisallyouneed.}

Protein language models have shown remarkable success in learning biological information from protein sequences. However, most existing models are limited by either autoencoding or autoregressive pre-training objectives, which makes them struggle to handle protein understanding and generation tasks concurrently. We propose a unified protein language model, xTrimoPGLM, to address these two types of tasks simultaneously through an innovative pre-training framework. Our key technical contribution is an exploration of the compatibility and the potential for joint optimization of the two types of objectives, which has led to a strategy for training xTrimoPGLM at an unprecedented scale of 100 billion parameters and 1 trillion training tokens. Our extensive experiments reveal that 1) xTrimoPGLM significantly outperforms other advanced baselines in 18 protein understanding benchmarks across four categories. The model also facilitates an atomic-resolution view of protein structures, leading to an advanced 3D structural prediction model that surpasses existing language model-based tools. 2) xTrimoPGLM not only can generate de novo protein sequences following the principles of natural ones, but also can perform programmable generation after supervised fine-tuning (SFT) on curated sequences. These results highlight the substantial capability and versatility of xTrimoPGLM in understanding and generating protein sequences, contributing to the evolving landscape of foundation models in protein science.

Unsupervised domain adaptation leverages abundant labeled data from various source domains to generalize onto unlabeled target data. Prior research has primarily focused on learning domain-invariant features across the source and target domains. However, these methods often require training a model using source domain data, which is time-consuming and can limit model usage for applications with different source data. This paper introduces a simple framework that utilizes the impressive generalization capabilities of Large Language Models (LLMs) for target data annotation without the need of source model training, followed by a novel similarity-based knowledge distillation loss. Our extensive experiments on cross-domain text classification reveal that our framework achieves impressive performance, specifically, 2.44\% accuracy improvement when compared to the SOTA method.

In recent years, large language models (LLMs) have achieved state-of-the-art results in various biological sequence analysis tasks, such as sequence classification, structure prediction, and function prediction. Similar to advancements in AI for other scientific fields, deeper research into biological LLMs has begun to focus on using these models to rediscover important existing biological laws or uncover entirely new patterns in biological sequences.This study leverages GPT-like LLMs to utilize language transfer capabilities to rediscover the genetic code rules of the central dogma. In our experimental design, we transformed the central dogma into a binary classification problem of aligning DNA sequences with protein sequences, where positive examples are matching DNA and protein sequences, and negative examples are non-matching pairs.We first trained a GPT-2 model from scratch using a dataset comprising protein sequences, DNA sequences, and sequences from languages such as English and Chinese. Subsequently, we fine-tuned the model using the English similarity judgment dataset from PAWS-X. When tested on a dataset for DNA and protein sequence alignment judgment, the fine-tuned model achieved a classification accuracy of 76%. The study also analyzed factors contributing to this zero-shot capability, including model training stability and types of training data.This research demonstrates that LLMs can, through the transfer of natural language capabilities and solely relying on the analysis of sequences themselves, rediscover the central dogma without prior knowledge of it. This study opens a new door for AI-driven biological research.

Sequence-to-sequence (Seq2Seq) models with attention have excelled at tasks which involve generating natural language sentences such as machine translation, image captioning and speech recognition. Performance has further been improved by leveraging unlabeled data, often in the form of a language model. In this work, we present the Cold Fusion method, which leverages a pre-trained language model during training, and show its effectiveness on the speech recognition task. We show that Seq2Seq models with Cold Fusion are able to better utilize language information enjoying i) faster convergence and better generalization, and ii) almost complete transfer to a new domain while using less than 10% of the labeled training data.

Linear Recurrence has proven to be a powerful tool for modeling long sequences efficiently. In this work, we show that existing models fail to take full advantage of its potential. Motivated by this finding, we develop GateLoop, a foundational sequence model that generalizes linear recurrent models such as S4, S5, LRU and RetNet, by employing data-controlled state transitions. Utilizing this theoretical advance, GateLoop empirically outperforms existing models for auto-regressive language modeling. Our method comes with a low-cost O(l) recurrent mode and an efficient O(l log_{2} l) parallel mode making use of highly optimized associative scan implementations. Furthermore, we derive an O(l^2) surrogate attention mode, revealing remarkable implications for Transformer and recently proposed architectures. Specifically, we prove that our approach can be interpreted as providing data-controlled relative-positional information to Attention. While many existing models solely rely on data-controlled cumulative sums for context aggregation, our findings suggest that incorporating data-controlled complex cumulative products may be a crucial step towards more powerful sequence models.

Large language models (LLMs) have shown impressive ability for open-domain NLP tasks. However, LLMs are sometimes too footloose for natural language understanding (NLU) tasks which always have restricted output and input format. Their performances on NLU tasks are highly related to prompts or demonstrations and are shown to be poor at performing several representative NLU tasks, such as event extraction and entity typing. To this end, we present SeqGPT, a bilingual (i.e., English and Chinese) open-source autoregressive model specially enhanced for open-domain natural language understanding. We express all NLU tasks with two atomic tasks, which define fixed instructions to restrict the input and output format but still ``open'' for arbitrarily varied label sets. The model is first instruction-tuned with extremely fine-grained labeled data synthesized by ChatGPT and then further fine-tuned by 233 different atomic tasks from 152 datasets across various domains. The experimental results show that SeqGPT has decent classification and extraction ability, and is capable of performing language understanding tasks on unseen domains. We also conduct empirical studies on the scaling of data and model size as well as on the transfer across tasks. Our model is accessible at https://github.com/Alibaba-NLP/SeqGPT.

Large language models (LLMs) have revolutionized natural language processing, yet they remain constrained by fixed, non-differentiable tokenizers like Byte Pair Encoding (BPE), which hinder end-to-end optimization and adaptability to noisy or domain-specific data. We introduce Zonkey, a hierarchical diffusion model that addresses these limitations through a fully trainable pipeline from raw characters to document-level representations. At its core is a differentiable tokenizer (Segment Splitter) that learns probabilistic beginning-of-sequence (BOS) decisions, enabling adaptive splits that emerge as linguistically meaningful (e.g., word boundaries at spaces, sentence starts at periods) without explicit supervision. This differentiability is enabled by our novel Probabilistic Attention mechanism, which incorporates position-specific existence probabilities to simulate soft masking over theoretically infinite sequences while preserving gradients. Sequences decay probabilistically rather than relying on end-of-sequence tokens, supporting variable-length outputs. Hierarchical levels compress sequences into higher abstractions (e.g., character n-grams to word-like vectors, then sentence-like), with reconstruction via our Denoising Diffusion Mixed Model (DDMM) for stable and efficient denoising in latent space. A Stitcher ensures overlap invariance across segments. Trained end-to-end on Wikipedia, Zonkey generates coherent, variable-length text from noise, demonstrating emergent hierarchies and promising qualitative alignment to data distributions compared to entropy-based learnable tokenizers. Our approach advances toward fully gradient-based LLMs, with potential for better domain adaptation and scalable generation. We release the source code for training and reproducing our experiments.

Data of sequential nature arise in many application domains in forms of, e.g. textual data, DNA sequences, and software execution traces. Different research disciplines have developed methods to learn sequence models from such datasets: (i) in the machine learning field methods such as (hidden) Markov models and recurrent neural networks have been developed and successfully applied to a wide-range of tasks, (ii) in process mining process discovery techniques aim to generate human-interpretable descriptive models, and (iii) in the grammar inference field the focus is on finding descriptive models in the form of formal grammars. Despite their different focuses, these fields share a common goal - learning a model that accurately describes the behavior in the underlying data. Those sequence models are generative, i.e, they can predict what elements are likely to occur after a given unfinished sequence. So far, these fields have developed mainly in isolation from each other and no comparison exists. This paper presents an interdisciplinary experimental evaluation that compares sequence modeling techniques on the task of next-element prediction on four real-life sequence datasets. The results indicate that machine learning techniques that generally have no aim at interpretability in terms of accuracy outperform techniques from the process mining and grammar inference fields that aim to yield interpretable models.

Sequence modeling has produced diverse architectures -- from classical recurrent neural networks to modern Transformers and state space models (SSMs) -- yet a unified theoretical understanding of expressivity and trainability trade-offs remains limited. We introduce a unified framework that represents a broad class of sequence maps via an input-dependent effective interaction operator W_{ij}(X), making explicit two recurring construction patterns: (i) the Unified Factorized Framework (Explicit) (attention-style mixing), in which W_{ij}(X) varies through scalar coefficients applied to shared value maps, and (ii) Structured Dynamics (Implicit) (state-space recurrences), in which W_{ij} is induced by a latent dynamical system. Using this framework, we derive three theoretical results. First, we establish the Interaction Rank Gap: models in the Unified Factorized Framework, such as single-head attention, are constrained to a low-dimensional operator span and cannot represent certain structured dynamical maps. Second, we prove an Equivalence (Head-Count) Theorem showing that, within our multi-head factorized class, representing a linear SSM whose lag operators span a k-dimensional subspace on length-n sequences requires and is achievable with H=k heads. Third, we prove a Gradient Highway Result, showing that attention layers admit inputs with distance-independent gradient paths, whereas stable linear dynamics exhibit distance-dependent gradient attenuation. Together, these results formalize a fundamental trade-off between algebraic expressivity (interaction/operator span) and long-range gradient propagation, providing theoretical grounding for modern sequence architecture design.

Generative protein language models are a natural way to design new proteins with desired functions. However, current models are either difficult to direct to produce a protein from a specific family of interest, or must be trained on a large multiple sequence alignment (MSA) from the specific family of interest, making them unable to benefit from transfer learning across families. To address this, we propose Protein Evolutionary Transformer (PoET), an autoregressive generative model of whole protein families that learns to generate sets of related proteins as sequences-of-sequences across tens of millions of natural protein sequence clusters. PoET can be used as a retrieval-augmented language model to generate and score arbitrary modifications conditioned on any protein family of interest, and can extrapolate from short context lengths to generalize well even for small families. This is enabled by a unique Transformer layer; we model tokens sequentially within sequences while attending between sequences order invariantly, allowing PoET to scale to context lengths beyond those used during training. In extensive experiments on deep mutational scanning datasets, we show that PoET outperforms existing protein language models and evolutionary sequence models for variant function prediction across proteins of all MSA depths. We also demonstrate PoET's ability to controllably generate new protein sequences.

State of the art sequence-to-sequence models for large scale tasks perform a fixed number of computations for each input sequence regardless of whether it is easy or hard to process. In this paper, we train Transformer models which can make output predictions at different stages of the network and we investigate different ways to predict how much computation is required for a particular sequence. Unlike dynamic computation in Universal Transformers, which applies the same set of layers iteratively, we apply different layers at every step to adjust both the amount of computation as well as the model capacity. On IWSLT German-English translation our approach matches the accuracy of a well tuned baseline Transformer while using less than a quarter of the decoder layers.

In the large language model (LLM) revolution, embedding is a key component of various systems. For example, it is used to retrieve knowledge or memories for LLMs, to build content moderation filters, etc. As such cases span from English to other natural or programming languages, from retrieval to classification and beyond, it is desirable to build a unified embedding model rather than dedicated ones for each scenario. In this work, we make an initial step towards this goal, demonstrating that multiple languages (both natural and programming) pre-trained transformer decoders can embed universally when finetuned on limited English data. We provide a comprehensive practice with thorough evaluations. On English MTEB, our models achieve competitive performance on different embedding tasks by minimal training data. On other benchmarks, such as multilingual classification and code search, our models (without any supervision) perform comparably to, or even surpass heavily supervised baselines and/or APIs. These results provide evidence of a promising path towards building powerful unified embedders that can be applied across tasks and languages.

We consider higher-order linear-chain conditional random fields (HO-LC-CRFs) for sequence modelling, and use sum-product networks (SPNs) for representing higher-order input- and output-dependent factors. SPNs are a recently introduced class of deep models for which exact and efficient inference can be performed. By combining HO-LC-CRFs with SPNs, expressive models over both the output labels and the hidden variables are instantiated while still enabling efficient exact inference. Furthermore, the use of higher-order factors allows us to capture relations of multiple input segments and multiple output labels as often present in real-world data. These relations can not be modelled by the commonly used first-order models and higher-order models with local factors including only a single output label. We demonstrate the effectiveness of our proposed models for sequence labeling. In extensive experiments, we outperform other state-of-the-art methods in optical character recognition and achieve competitive results in phone classification.

Large Language Models (LLMs) have delivered impressive results in language understanding, generation, reasoning, and pushes the ability boundary of multimodal models. Transformer models, as the foundation of modern LLMs, offer a strong baseline with excellent scaling properties. However, the traditional transformer architecture requires substantial computations and poses significant obstacles for large-scale training and practical deployment. In this survey, we offer a systematic examination of innovative LLM architectures that address the inherent limitations of transformers and boost the efficiency. Starting from language modeling, this survey covers the background and technical details of linear and sparse sequence modeling methods, efficient full attention variants, sparse mixture-of-experts, hybrid model architectures incorporating the above techniques, and emerging diffusion LLMs. Additionally, we discuss applications of these techniques to other modalities and consider their wider implications for developing scalable, resource-aware foundation models. By grouping recent studies into the above category, this survey presents a blueprint of modern efficient LLM architectures, and we hope this could help motivate future research toward more efficient, versatile AI systems.

In reasoning about sequential events it is natural to pose probabilistic queries such as "when will event A occur next" or "what is the probability of A occurring before B", with applications in areas such as user modeling, medicine, and finance. However, with machine learning shifting towards neural autoregressive models such as RNNs and transformers, probabilistic querying has been largely restricted to simple cases such as next-event prediction. This is in part due to the fact that future querying involves marginalization over large path spaces, which is not straightforward to do efficiently in such models. In this paper we introduce a general typology for predictive queries in neural autoregressive sequence models and show that such queries can be systematically represented by sets of elementary building blocks. We leverage this typology to develop new query estimation methods based on beam search, importance sampling, and hybrids. Across four large-scale sequence datasets from different application domains, as well as for the GPT-2 language model, we demonstrate the ability to make query answering tractable for arbitrary queries in exponentially-large predictive path-spaces, and find clear differences in cost-accuracy tradeoffs between search and sampling methods.

State-space models (SSMs) offer a promising architecture for sequence modeling, providing an alternative to Transformers by replacing expensive self-attention with linear recurrences. In this paper, we propose a simple yet effective trick to enhance SSMs within given computational budgets by sparsifying them. Our intuition is that tokens in SSMs are highly redundant due to gradual recurrent updates, and dense recurrence operations block the delivery of past information. In particular, we observe that upper layers of SSMs tend to be more redundant as they encode global information, while lower layers encode local information. Motivated by this, we introduce Simba, a hierarchical sparsification method for SSMs based on token pruning. Simba sparsifies upper layers more than lower layers, encouraging the upper layers to behave like highways. To achieve this, we propose a novel token pruning criterion for SSMs, measuring the global impact of tokens on the final output by accumulating local recurrences. We demonstrate that Simba outperforms the baseline model, Mamba, with the same FLOPS in various natural language tasks. Moreover, we illustrate the effect of highways, showing that Simba not only enhances efficiency but also improves the information flow across long sequences. Code is available at https://github.com/woominsong/Simba.

The ability to generate natural language sequences from source code snippets has a variety of applications such as code summarization, documentation, and retrieval. Sequence-to-sequence (seq2seq) models, adopted from neural machine translation (NMT), have achieved state-of-the-art performance on these tasks by treating source code as a sequence of tokens. We present {scriptsize CODE2SEQ}: an alternative approach that leverages the syntactic structure of programming languages to better encode source code. Our model represents a code snippet as the set of compositional paths in its abstract syntax tree (AST) and uses attention to select the relevant paths while decoding. We demonstrate the effectiveness of our approach for two tasks, two programming languages, and four datasets of up to 16M examples. Our model significantly outperforms previous models that were specifically designed for programming languages, as well as state-of-the-art NMT models. An interactive online demo of our model is available at http://code2seq.org. Our code, data and trained models are available at http://github.com/tech-srl/code2seq.

A central challenge in sequence modeling is efficiently handling tasks with extended contexts. While recent state-space models (SSMs) have made significant progress in this area, they often lack input-dependent filtering or require substantial increases in model complexity to handle input variability. We address this gap by introducing S7, a simplified yet powerful SSM that can handle input dependence while incorporating stable reparameterization and specific design choices to dynamically adjust state transitions based on input content, maintaining efficiency and performance. We prove that this reparameterization ensures stability in long-sequence modeling by keeping state transitions well-behaved over time. Additionally, it controls the gradient norm, enabling efficient training and preventing issues like exploding or vanishing gradients. S7 significantly outperforms baselines across various sequence modeling tasks, including neuromorphic event-based datasets, Long Range Arena benchmarks, and various physical and biological time series. Overall, S7 offers a more straightforward approach to sequence modeling without relying on complex, domain-specific inductive biases, achieving significant improvements across key benchmarks.

Current state-of-the-art dialogue systems heavily rely on extensive training datasets. However, challenges arise in domains where domain-specific training datasets are insufficient or entirely absent. To tackle this challenge, we propose a novel data Augmentation framework for Multi-Domain Dialogue Generation, referred to as AMD^2G. The AMD^2G framework consists of a data augmentation process and a two-stage training approach: domain-agnostic training and domain adaptation training. We posit that domain corpora are a blend of domain-agnostic and domain-specific features, with certain representation patterns shared among diverse domains. Domain-agnostic training aims to enable models to learn these common expressive patterns. To construct domain-agnostic dialogue corpora, we employ a \textbf{de-domaining} data processing technique used to remove domain-specific features. By mitigating the effects of domain-specific features, the model trained on the de-domained corpora can effectively learn common expression patterns in different domains. Subsequently, we adapt the learned domain-agnostic features to the target domain through domain adaptation training. We conduct experiments on Chinese dialogue datasets from five different domains and show that AMD^2G achieves superior performance compared to both direct training on the target domain corpus and collective training on all five domain corpora. Our work underscores AMD^2G as a viable alternative solution for low-resource multi-domain dialogue generation. Code and data associated with our work are available on GitHub repository^{text 1}.

Traditionally, large language models have been either trained on general web crawls or domain-specific data. However, recent successes of generative large language models, have shed light on the benefits of cross-domain datasets. To examine the significance of prioritizing data diversity over quality, we present a German dataset comprising texts from five domains, along with another dataset aimed at containing high-quality data. Through training a series of models ranging between 122M and 750M parameters on both datasets, we conduct a comprehensive benchmark on multiple downstream tasks. Our findings demonstrate that the models trained on the cross-domain dataset outperform those trained on quality data alone, leading to improvements up to 4.45% over the previous state-of-the-art. The models are available at https://huggingface.co/ikim-uk-essen

Linear Sequence Modeling (LSM) like linear attention, state space models and linear RNNs, and Mixture-of-Experts (MoE) have recently emerged as significant architectural improvements. In this paper, we introduce Linear-MoE, a production-level system for modeling and training large-scale models that integrate LSM with MoE. Linear-MoE leverages the advantages of both LSM modules for linear-complexity sequence modeling and MoE layers for sparsely activation, aiming to offer high performance with efficient training. The Linear-MoE system comprises: 1) Modeling subsystem, which provides a unified framework supporting all instances of LSM. and 2) Training subsystem, which facilitates efficient training by incorporating various advanced parallelism technologies, particularly Sequence Parallelism designed for Linear-MoE models. Additionally, we explore hybrid models that combine Linear-MoE layers with standard Transformer-MoE layers with its Sequence Parallelism to further enhance model flexibility and performance. Evaluations on two model series, A0.3B-2B and A1B-7B, demonstrate Linear-MoE achieves efficiency gains while maintaining competitive performance on various benchmarks, showcasing its potential as a next-generation foundational model architecture. Code: https://github.com/OpenSparseLLMs/Linear-MoE.

This paper presents a unified Vision-Language Pre-training (VLP) model. The model is unified in that (1) it can be fine-tuned for either vision-language generation (e.g., image captioning) or understanding (e.g., visual question answering) tasks, and (2) it uses a shared multi-layer transformer network for both encoding and decoding, which differs from many existing methods where the encoder and decoder are implemented using separate models. The unified VLP model is pre-trained on a large amount of image-text pairs using the unsupervised learning objectives of two tasks: bidirectional and sequence-to-sequence (seq2seq) masked vision-language prediction. The two tasks differ solely in what context the prediction conditions on. This is controlled by utilizing specific self-attention masks for the shared transformer network. To the best of our knowledge, VLP is the first reported model that achieves state-of-the-art results on both vision-language generation and understanding tasks, as disparate as image captioning and visual question answering, across three challenging benchmark datasets: COCO Captions, Flickr30k Captions, and VQA 2.0. The code and the pre-trained models are available at https://github.com/LuoweiZhou/VLP.

Pretraining datasets for large language models (LLMs) have grown to trillions of tokens composed of large amounts of CommonCrawl (CC) web scrape along with smaller, domain-specific datasets. It is expensive to understand the impact of these domain-specific datasets on model capabilities as training at large FLOP scales is required to reveal significant changes to difficult and emergent benchmarks. Given the increasing cost of experimenting with pretraining data, how does one determine the optimal balance between the diversity in general web scrapes and the information density of domain specific data? In this work, we show how to leverage the smaller domain specific datasets by upsampling them relative to CC at the end of training to drive performance improvements on difficult benchmarks. This simple technique allows us to improve up to 6.90 pp on MMLU, 8.26 pp on GSM8K, and 6.17 pp on HumanEval relative to the base data mix for a 7B model trained for 1 trillion (T) tokens, thus rivaling Llama-2 (7B)x2014a model trained for twice as long. We experiment with ablating the duration of domain upsampling from 5% to 30% of training and find that 10% to 20% percent is optimal for navigating the tradeoff between general language modeling capabilities and targeted benchmarks. We also use domain upsampling to characterize at scale the utility of individual datasets for improving various benchmarks by removing them during this final phase of training. This tool opens up the ability to experiment with the impact of different pretraining datasets at scale, but at an order of magnitude lower cost compared to full pretraining runs.

This project aims to investigate a novel sequence generation method inspired by the AlphaGo paradigm, adapting it for use with large language models (LLMs). The proposed approach involves creating search trees of different possible completions and evaluating these completions based on model confidence. By considering various paths in the search tree and scoring them according to the model's confidence in each completion, we can generate diverse and high-quality sequences. This research explores the implementation of this paradigm by using confidence as a proxy for response quality akin to beam search vijayakumar2016diverse. The primary goal of this paper is to outline the paradigm and demonstrate its potential, rather than focusing on achieving perfect results. The paper will outline the reasons why we believe this paradigm has the potential to improve LLMs in the following manners: 1) increase output quality, 2) decrease errors, 3) eliminate or reduce the compound error problems, 4) generate diverse and creative completions, 5) allow for iterative problem-solving, and 6) self-training. We expect this approach to yield a set of diverse and coherent sequences, offering insights into balancing exploration and exploitation in sequence generation. Potential applications include creative text generation tasks, such as storytelling and content creation, as well as other natural language processing domains, like machine translation and automated summarization. The goal is that the model will be far more effective as it will be able to consider many possible variations allowing it to find the ideal completion. This research aims to contribute to the understanding of effective search strategies in sequence generation and their impact on generating high-quality, varied textual outputs.

Building a general-purpose task model similar to ChatGPT has been an important research direction for gene large language models. Instruction fine-tuning is a key component in building ChatGPT, but existing instructions are primarily based on natural language. Natural language and gene sequences have significant differences in tokenization and encoding. Therefore, constructing a multilingual model that can handle both natural language and gene sequences is crucial for solving this problem.In this paper, we expand the capabilities of the LLaMA large language model to include gene language. This involves expanding the vocabulary using the Byte Pair Encoding (BPE) method, specifically tailored for DNA and protein sequences, and conducting further pre-training on these sequences. We then convert various downstream gene task data into a unified format for instruction fine-tuning and further fine-tune the model on this data.Our study demonstrates that a mixed model of gene and natural language, fine-tuned with instructions, achieves results comparable to the current state-of-the-art (SOTA) in tasks such as gene classification and gene sequence interaction. This provides a promising direction for building a unified large language model for gene tasks.

Natural Language Processing algorithms have made incredible progress, but they still struggle when applied to out-of-distribution examples. We address a challenging and underexplored version of this domain adaptation problem, where an algorithm is trained on several source domains, and then applied to examples from unseen domains that are unknown at training time. Particularly, no examples, labeled or unlabeled, or any other knowledge about the target domain are available to the algorithm at training time. We present PADA: An example-based autoregressive Prompt learning algorithm for on-the-fly Any-Domain Adaptation, based on the T5 language model. Given a test example, PADA first generates a unique prompt for it and then, conditioned on this prompt, labels the example with respect to the NLP prediction task. PADA is trained to generate a prompt which is a token sequence of unrestricted length, consisting of Domain Related Features (DRFs) that characterize each of the source domains. Intuitively, the generated prompt is a unique signature that maps the test example to a semantic space spanned by the source domains. In experiments with 3 tasks (text classification and sequence tagging), for a total of 14 multi-source adaptation scenarios, PADA substantially outperforms strong baselines.

Diffusion language models (DLMs) have strong theoretical efficiency but are limited by fixed-length decoding and incompatibility with key-value (KV) caches. Block diffusion mitigates these issues, yet still enforces a fixed block size and requires expensive training. We introduce Next Sequence Prediction (NSP), which unifies next-token and next-block prediction, enabling the model to adaptively determine the generation length at each step. When the length is fixed to 1, NSP reduces to standard next-token prediction. Building on NSP, we propose Sequential Diffusion Language Model (SDLM), which can retrofit pre-trained autoregressive language models (ALMs) at minimal cost. Specifically, SDLM performs diffusion inference within fixed-size mask blocks, but dynamically decodes consecutive subsequences based on model confidence, thereby preserving KV-cache compatibility and improving robustness to varying uncertainty and semantics across the sequence. Experiments show that SDLM matches or surpasses strong autoregressive baselines using only 3.5M training samples, while achieving 2.1 higher throughput than Qwen-2.5. Notably, the SDLM-32B model delivers even more pronounced efficiency gains, demonstrating the strong scalability potential of our modeling paradigm. Project page and codes: https://github.com/OpenGVLab/SDLM

In data-to-text (D2T) generation, training on in-domain data leads to overfitting to the data representation and repeating training data noise. We examine how to avoid finetuning pretrained language models (PLMs) on D2T generation datasets while still taking advantage of surface realization capabilities of PLMs. Inspired by pipeline approaches, we propose to generate text by transforming single-item descriptions with a sequence of modules trained on general-domain text-based operations: ordering, aggregation, and paragraph compression. We train PLMs for performing these operations on a synthetic corpus WikiFluent which we build from English Wikipedia. Our experiments on two major triple-to-text datasets -- WebNLG and E2E -- show that our approach enables D2T generation from RDF triples in zero-shot settings.

Current state-of-the-art automatic speech recognition systems are trained to work in specific `domains', defined based on factors like application, sampling rate and codec. When such recognizers are used in conditions that do not match the training domain, performance significantly drops. This work explores the idea of building a single domain-invariant model for varied use-cases by combining large scale training data from multiple application domains. Our final system is trained using 162,000 hours of speech. Additionally, each utterance is artificially distorted during training to simulate effects like background noise, codec distortion, and sampling rates. Our results show that, even at such a scale, a model thus trained works almost as well as those fine-tuned to specific subsets: A single model can be robust to multiple application domains, and variations like codecs and noise. More importantly, such models generalize better to unseen conditions and allow for rapid adaptation -- we show that by using as little as 10 hours of data from a new domain, an adapted domain-invariant model can match performance of a domain-specific model trained from scratch using 70 times as much data. We also highlight some of the limitations of such models and areas that need addressing in future work.

The ability of large language models (LLMs) to perform zero-shot classification makes them viable solutions for data annotation in rapidly evolving domains where quality labeled data is often scarce and costly to obtain. However, the large-scale deployment of LLMs can be prohibitively expensive. This paper introduces an LLM chain ensemble methodology that aligns multiple LLMs in a sequence, routing data subsets to subsequent models based on classification uncertainty. This approach leverages the strengths of individual LLMs within a broader system, allowing each model to handle data points where it exhibits the highest confidence, while forwarding more complex cases to potentially more robust models. Our results show that the chain ensemble method often exceeds the performance of the best individual model in the chain and achieves substantial cost savings, making LLM chain ensembles a practical and efficient solution for large-scale data annotation challenges.

Many large language models (LLMs) for medicine have largely been evaluated on short texts, and their ability to handle longer sequences such as a complete electronic health record (EHR) has not been systematically explored. Assessing these models on long sequences is crucial since prior work in the general domain has demonstrated performance degradation of LLMs on longer texts. Motivated by this, we introduce LongBoX, a collection of seven medical datasets in text-to-text format, designed to investigate model performance on long sequences. Preliminary experiments reveal that both medical LLMs (e.g., BioGPT) and strong general domain LLMs (e.g., FLAN-T5) struggle on this benchmark. We further evaluate two techniques designed for long-sequence handling: (i) local-global attention, and (ii) Fusion-in-Decoder (FiD). Our results demonstrate mixed results with long-sequence handling - while scores on some datasets increase, there is substantial room for improvement. We hope that LongBoX facilitates the development of more effective long-sequence techniques for the medical domain. Data and source code are available at https://github.com/Mihir3009/LongBoX.

Despite outstanding processes in many tasks, Large Language Models (LLMs) still lack accuracy when dealing with highly technical domains. Especially, telecommunications (telco) is a particularly challenging domain due the large amount of lexical, semantic and conceptual peculiarities. Yet, this domain holds many valuable use cases, directly linked to industrial needs. Hence, this paper studies how LLMs can be adapted to the telco domain. It reports our effort to (i) collect a massive corpus of domain-specific data (800M tokens, 80K instructions), (ii) perform adaptation using various methodologies, and (iii) benchmark them against larger generalist models in downstream tasks that require extensive knowledge of telecommunications. Our experiments on Llama-2-7b show that domain-adapted models can challenge the large generalist models. They also suggest that adaptation can be restricted to a unique instruction-tuning step, dicarding the need for any fine-tuning on raw texts beforehand.

We present M2D2, a fine-grained, massively multi-domain corpus for studying domain adaptation in language models (LMs). M2D2 consists of 8.5B tokens and spans 145 domains extracted from Wikipedia and Semantic Scholar. Using ontologies derived from Wikipedia and ArXiv categories, we organize the domains in each data source into 22 groups. This two-level hierarchy enables the study of relationships between domains and their effects on in- and out-of-domain performance after adaptation. We also present a number of insights into the nature of effective domain adaptation in LMs, as examples of the new types of studies M2D2 enables. To improve in-domain performance, we show the benefits of adapting the LM along a domain hierarchy; adapting to smaller amounts of fine-grained domain-specific data can lead to larger in-domain performance gains than larger amounts of weakly relevant data. We further demonstrate a trade-off between in-domain specialization and out-of-domain generalization within and across ontologies, as well as a strong correlation between out-of-domain performance and lexical overlap between domains.

Large language models (LLMs) have demonstrated promising performance in both automatic speech recognition (ASR) and text-to-speech (TTS) systems, gradually becoming the mainstream approach. However, most current approaches address these tasks separately rather than through a unified framework. This work aims to integrate these two tasks into one unified model. Although discrete speech tokenization enables joint modeling, its inherent information loss limits performance in both recognition and generation. In this work, we present UniVoice, a unified LLM framework through continuous representations that seamlessly integrates speech recognition and synthesis within a single model. Our approach combines the strengths of autoregressive modeling for speech recognition with flow matching for high-quality generation. To mitigate the inherent divergence between autoregressive and flow-matching models, we further design a dual attention mechanism, which switches between a causal mask for recognition and a bidirectional attention mask for synthesis. Furthermore, the proposed text-prefix-conditioned speech infilling method enables high-fidelity zero-shot voice cloning. Experimental results demonstrate that our method can achieve or exceed current single-task modeling methods in both ASR and zero-shot TTS tasks. This work explores new possibilities for end-to-end speech understanding and generation. Code is available at https://github.com/gwh22/UniVoice.

When deploying machine learning systems to the wild, it is highly desirable for them to effectively leverage prior knowledge to the unfamiliar domain while also firing alarms to anomalous inputs. In order to address these requirements, Universal Domain Adaptation (UniDA) has emerged as a novel research area in computer vision, focusing on achieving both adaptation ability and robustness (i.e., the ability to detect out-of-distribution samples). While UniDA has led significant progress in computer vision, its application on language input still needs to be explored despite its feasibility. In this paper, we propose a comprehensive benchmark for natural language that offers thorough viewpoints of the model's generalizability and robustness. Our benchmark encompasses multiple datasets with varying difficulty levels and characteristics, including temporal shifts and diverse domains. On top of our testbed, we validate existing UniDA methods from computer vision and state-of-the-art domain adaptation techniques from NLP literature, yielding valuable findings: We observe that UniDA methods originally designed for image input can be effectively transferred to the natural language domain while also underscoring the effect of adaptation difficulty in determining the model's performance.

Neural sequence-to-sequence models provide a competitive approach to the task of mapping a question in natural language to an SQL query, also referred to as text-to-SQL generation. The Byte-Pair Encoding algorithm (BPE) has previously been used to improve machine translation (MT) between natural languages. In this work, we adapt BPE for text-to-SQL generation. As the datasets for this task are rather small compared to MT, we present a novel stopping criterion that prevents overfitting the BPE encoding to the training set. Additionally, we present AST BPE, which is a version of BPE that uses the Abstract Syntax Tree (AST) of the SQL statement to guide BPE merges and therefore produce BPE encodings that generalize better. We improved the accuracy of a strong attentive seq2seq baseline on five out of six English text-to-SQL tasks while reducing training time by more than 50% on four of them due to the shortened targets. Finally, on two of these tasks we exceeded previously reported accuracies.

Many machine learning tasks can be expressed as the transformation---or transduction---of input sequences into output sequences: speech recognition, machine translation, protein secondary structure prediction and text-to-speech to name but a few. One of the key challenges in sequence transduction is learning to represent both the input and output sequences in a way that is invariant to sequential distortions such as shrinking, stretching and translating. Recurrent neural networks (RNNs) are a powerful sequence learning architecture that has proven capable of learning such representations. However RNNs traditionally require a pre-defined alignment between the input and output sequences to perform transduction. This is a severe limitation since finding the alignment is the most difficult aspect of many sequence transduction problems. Indeed, even determining the length of the output sequence is often challenging. This paper introduces an end-to-end, probabilistic sequence transduction system, based entirely on RNNs, that is in principle able to transform any input sequence into any finite, discrete output sequence. Experimental results for phoneme recognition are provided on the TIMIT speech corpus.

Sequence-to-sequence models excel at handling natural language variation, but have been shown to struggle with out-of-distribution compositional generalization. This has motivated new specialized architectures with stronger compositional biases, but most of these approaches have only been evaluated on synthetically-generated datasets, which are not representative of natural language variation. In this work we ask: can we develop a semantic parsing approach that handles both natural language variation and compositional generalization? To better assess this capability, we propose new train and test splits of non-synthetic datasets. We demonstrate that strong existing approaches do not perform well across a broad set of evaluations. We also propose NQG-T5, a hybrid model that combines a high-precision grammar-based approach with a pre-trained sequence-to-sequence model. It outperforms existing approaches across several compositional generalization challenges on non-synthetic data, while also being competitive with the state-of-the-art on standard evaluations. While still far from solving this problem, our study highlights the importance of diverse evaluations and the open challenge of handling both compositional generalization and natural language variation in semantic parsing.

Fine-tuning pre-trained language models has become the prevalent paradigm for building downstream NLP models. Oftentimes fine-tuned models are readily available but their training data is not, due to data privacy or intellectual property concerns. This creates a barrier to fusing knowledge across individual models to yield a better single model. In this paper, we study the problem of merging individual models built on different training data sets to obtain a single model that performs well both across all data set domains and can generalize on out-of-domain data. We propose a dataless knowledge fusion method that merges models in their parameter space, guided by weights that minimize prediction differences between the merged model and the individual models. Over a battery of evaluation settings, we show that the proposed method significantly outperforms baselines such as Fisher-weighted averaging or model ensembling. Further, we find that our method is a promising alternative to multi-task learning that can preserve or sometimes improve over the individual models without access to the training data. Finally, model merging is more efficient than training a multi-task model, thus making it applicable to a wider set of scenarios.

Large Language Models (LLMs) have demonstrated remarkable proficiency in understanding and generating natural language. However, their capabilities wane in highly specialized domains underrepresented in the pretraining corpus, such as physical and biomedical sciences. This work explores how to repurpose general LLMs into effective task solvers for specialized domains. We introduce a novel, model-agnostic framework for learning custom input tags, which are parameterized as continuous vectors appended to the LLM's embedding layer, to condition the LLM. We design two types of input tags: domain tags are used to delimit specialized representations (e.g., chemical formulas) and provide domain-relevant context; function tags are used to represent specific functions (e.g., predicting molecular properties) and compress function-solving instructions. We develop a three-stage protocol to learn these tags using auxiliary data and domain knowledge. By explicitly disentangling task domains from task functions, our method enables zero-shot generalization to unseen problems through diverse combinations of the input tags. It also boosts LLM's performance in various specialized domains, such as predicting protein or chemical properties and modeling drug-target interactions, outperforming expert models tailored to these tasks.

Recent sequence modeling approaches using selective state space sequence models, referred to as Mamba models, have seen a surge of interest. These models allow efficient processing of long sequences in linear time and are rapidly being adopted in a wide range of applications such as language modeling, demonstrating promising performance. To foster their reliable use in real-world scenarios, it is crucial to augment their transparency. Our work bridges this critical gap by bringing explainability, particularly Layer-wise Relevance Propagation (LRP), to the Mamba architecture. Guided by the axiom of relevance conservation, we identify specific components in the Mamba architecture, which cause unfaithful explanations. To remedy this issue, we propose MambaLRP, a novel algorithm within the LRP framework, which ensures a more stable and reliable relevance propagation through these components. Our proposed method is theoretically sound and excels in achieving state-of-the-art explanation performance across a diverse range of models and datasets. Moreover, MambaLRP facilitates a deeper inspection of Mamba architectures, uncovering various biases and evaluating their significance. It also enables the analysis of previous speculations regarding the long-range capabilities of Mamba models.

Graphs are able to model interconnected entities in many online services, supporting a wide range of applications on the Web. This raises an important question: How can we train a graph foundational model on multiple source domains and adapt to an unseen target domain? A major obstacle is that graphs from different domains often exhibit divergent characteristics. Some studies leverage large language models to align multiple domains based on textual descriptions associated with the graphs, limiting their applicability to text-attributed graphs. For text-free graphs, a few recent works attempt to align different feature distributions across domains, while generally neglecting structural differences. In this work, we propose a novel Structure Alignment framework for text-free Multi-domain Graph Pre-Training and cross-domain adaptation (SAMGPT). It is designed to learn multi-domain knowledge from graphs originating in multiple source domains, which can then be adapted to address applications in an unseen target domain. Specifically, we introduce a set of structure tokens to harmonize structure-based aggregation across source domains during the pre-training phase. Next, for cross-domain adaptation, we design dual prompts, namely, holistic prompts and specific prompts, which adapt unified multi-domain structural knowledge and fine-grained, domain-specific information, respectively, to a target domain. Finally, we conduct comprehensive experiments on seven public datasets to evaluate and analyze the effectiveness of SAMGPT.

For most deep learning practitioners, sequence modeling is synonymous with recurrent networks. Yet recent results indicate that convolutional architectures can outperform recurrent networks on tasks such as audio synthesis and machine translation. Given a new sequence modeling task or dataset, which architecture should one use? We conduct a systematic evaluation of generic convolutional and recurrent architectures for sequence modeling. The models are evaluated across a broad range of standard tasks that are commonly used to benchmark recurrent networks. Our results indicate that a simple convolutional architecture outperforms canonical recurrent networks such as LSTMs across a diverse range of tasks and datasets, while demonstrating longer effective memory. We conclude that the common association between sequence modeling and recurrent networks should be reconsidered, and convolutional networks should be regarded as a natural starting point for sequence modeling tasks. To assist related work, we have made code available at http://github.com/locuslab/TCN .

Sequence labeling remains a significant challenge in low-resource, domain-specific scenarios, particularly for character-dense languages like Chinese. Existing methods primarily focus on enhancing model comprehension and improving data diversity to boost performance. However, these approaches still struggle with inadequate model applicability and semantic distribution biases in domain-specific contexts. To overcome these limitations, we propose a novel framework that combines an LLM-based knowledge enhancement workflow with a span-based Knowledge Fusion for Rich and Efficient Extraction (KnowFREE) model. Our workflow employs explanation prompts to generate precise contextual interpretations of target entities, effectively mitigating semantic biases and enriching the model's contextual understanding. The KnowFREE model further integrates extension label features, enabling efficient nested entity extraction without relying on external knowledge during inference. Experiments on multiple Chinese domain-specific sequence labeling datasets demonstrate that our approach achieves state-of-the-art performance, effectively addressing the challenges posed by low-resource settings.

State space models have shown to be effective at modeling long range dependencies, specially on sequence classification tasks. In this work we focus on autoregressive sequence modeling over English books, Github source code and ArXiv mathematics articles. Based on recent developments around the effectiveness of gated activation functions, we propose a new layer named Gated State Space (GSS) and show that it trains significantly faster than the diagonal version of S4 (i.e. DSS) on TPUs, is fairly competitive with several well-tuned Transformer-based baselines and exhibits zero-shot generalization to longer inputs while being straightforward to implement. Finally, we show that leveraging self-attention to model local dependencies improves the performance of GSS even further.

In many domains, autoregressive models can attain high likelihood on the task of predicting the next observation. However, this maximum-likelihood (MLE) objective does not necessarily match a downstream use-case of autoregressively generating high-quality sequences. The MLE objective weights sequences proportionally to their frequency under the data distribution, with no guidance for the model's behaviour out of distribution (OOD): leading to compounding error during autoregressive generation. In order to address this compounding error problem, we formulate sequence generation as an imitation learning (IL) problem. This allows us to minimize a variety of divergences between the distribution of sequences generated by an autoregressive model and sequences from a dataset, including divergences with weight on OOD generated sequences. The IL framework also allows us to incorporate backtracking by introducing a backspace action into the generation process. This further mitigates the compounding error problem by allowing the model to revert a sampled token if it takes the sequence OOD. Our resulting method, SequenceMatch, can be implemented without adversarial training or major architectural changes. We identify the SequenceMatch-chi^2 divergence as a more suitable training objective for autoregressive models which are used for generation. We show that empirically, SequenceMatch training leads to improvements over MLE on text generation with language models.

Autoregressive models (ARMs), which predict subsequent tokens one-by-one ``from left to right,'' have achieved significant success across a wide range of sequence generation tasks. However, they struggle to accurately represent sequences that require satisfying sophisticated constraints or whose sequential dependencies are better addressed by out-of-order generation. Masked Diffusion Models (MDMs) address some of these limitations, but the process of unmasking multiple tokens simultaneously in MDMs can introduce incoherences, and MDMs cannot handle arbitrary infilling constraints when the number of tokens to be filled in is not known in advance. In this work, we introduce Insertion Language Models (ILMs), which learn to insert tokens at arbitrary positions in a sequence -- that is, they select jointly both the position and the vocabulary element to be inserted. By inserting tokens one at a time, ILMs can represent strong dependencies between tokens, and their ability to generate sequences in arbitrary order allows them to accurately model sequences where token dependencies do not follow a left-to-right sequential structure. To train ILMs, we propose a tailored network parameterization and use a simple denoising objective. Our empirical evaluation demonstrates that ILMs outperform both ARMs and MDMs on common planning tasks. Furthermore, we show that ILMs outperform MDMs and perform on par with ARMs in an unconditional text generation task while offering greater flexibility than MDMs in arbitrary-length text infilling.

Cross-domain named entity recognition (NER) models are able to cope with the scarcity issue of NER samples in target domains. However, most of the existing NER benchmarks lack domain-specialized entity types or do not focus on a certain domain, leading to a less effective cross-domain evaluation. To address these obstacles, we introduce a cross-domain NER dataset (CrossNER), a fully-labeled collection of NER data spanning over five diverse domains with specialized entity categories for different domains. Additionally, we also provide a domain-related corpus since using it to continue pre-training language models (domain-adaptive pre-training) is effective for the domain adaptation. We then conduct comprehensive experiments to explore the effectiveness of leveraging different levels of the domain corpus and pre-training strategies to do domain-adaptive pre-training for the cross-domain task. Results show that focusing on the fractional corpus containing domain-specialized entities and utilizing a more challenging pre-training strategy in domain-adaptive pre-training are beneficial for the NER domain adaptation, and our proposed method can consistently outperform existing cross-domain NER baselines. Nevertheless, experiments also illustrate the challenge of this cross-domain NER task. We hope that our dataset and baselines will catalyze research in the NER domain adaptation area. The code and data are available at https://github.com/zliucr/CrossNER.

Despite significant progress of generative models in the natural sciences, their controllability remains challenging. One fundamentally missing aspect of molecular or protein generative models is an inductive bias that can reflect continuous properties of interest. To that end, we propose the Regression Transformer (RT), a novel method that abstracts regression as a conditional sequence modeling problem. This introduces a new paradigm of multitask language models which seamlessly bridge sequence regression and conditional sequence generation. We thoroughly demonstrate that, despite using a nominal-scale training objective, the RT matches or surpasses the performance of conventional regression models in property prediction tasks of small molecules, proteins and chemical reactions. Critically, priming the same model with continuous properties yields a highly competitive conditional generative model that outperforms specialized approaches in a substructure-constrained, property-driven molecule generation benchmark. Our dichotomous approach is facilitated by a novel, alternating training scheme that enables the model to decorate seed sequences by desired properties, e.g., to optimize reaction yield. In sum, the RT is the first report of a multitask model that concurrently excels at predictive and generative tasks in biochemistry. This finds particular application in property-driven, local exploration of the chemical or protein space and could pave the road toward foundation models in material design. The code to reproduce all experiments of the paper is available at: https://github.com/IBM/regression-transformer

We present the Compressive Transformer, an attentive sequence model which compresses past memories for long-range sequence learning. We find the Compressive Transformer obtains state-of-the-art language modelling results in the WikiText-103 and Enwik8 benchmarks, achieving 17.1 ppl and 0.97 bpc respectively. We also find it can model high-frequency speech effectively and can be used as a memory mechanism for RL, demonstrated on an object matching task. To promote the domain of long-range sequence learning, we propose a new open-vocabulary language modelling benchmark derived from books, PG-19.

Pre-trained LLMs have demonstrated substantial capabilities across a range of conventional natural language processing (NLP) tasks, such as summarization and entity recognition. In this paper, we explore the application of LLMs in the generation of high-quality protein sequences. Specifically, we adopt a suite of pre-trained LLMs, including Mistral-7B1, Llama-2-7B2, Llama-3-8B3, and gemma-7B4, to produce valid protein sequences. All of these models are publicly available.5 Unlike previous work in this field, our approach utilizes a relatively small dataset comprising 42,000 distinct human protein sequences. We retrain these models to process protein-related data, ensuring the generation of biologically feasible protein structures. Our findings demonstrate that even with limited data, the adapted models exhibit efficiency comparable to established protein-focused models such as ProGen varieties, ProtGPT2, and ProLLaMA, which were trained on millions of protein sequences. To validate and quantify the performance of our models, we conduct comparative analyses employing standard metrics such as pLDDT, RMSD, TM-score, and REU. Furthermore, we commit to making the trained versions of all four models publicly available, fostering greater transparency and collaboration in the field of computational biology.

A wide array of sequence models are built on a framework modeled after Transformers, comprising alternating sequence mixer and channel mixer layers. This paper studies a unifying matrix mixer view of sequence mixers that can be conceptualized as a linear map on the input sequence. This framework encompasses a broad range of well-known sequence models, including the self-attention of Transformers as well as recent strong alternatives such as structured state space models (SSMs), and allows understanding downstream characteristics such as efficiency and expressivity through properties of their structured matrix class. We identify a key axis of matrix parameterizations termed sequence alignment, which increases the flexibility and performance of matrix mixers, providing insights into the strong performance of Transformers and recent SSMs such as Mamba. Furthermore, the matrix mixer framework offers a systematic approach to developing sequence mixers with desired properties, allowing us to develop several new sub-quadratic sequence models. In particular, we propose a natural bidirectional extension of the Mamba model (Hydra), parameterized as a quasiseparable matrix mixer, which demonstrates superior performance over other sequence models including Transformers on non-causal tasks. As a drop-in replacement for attention layers, Hydra outperforms BERT by 0.8 points on the GLUE benchmark and ViT by 2% Top-1 accuracy on ImageNet.

We consider two problems of NMT domain adaptation using meta-learning. First, we want to reach domain robustness, i.e., we want to reach high quality on both domains seen in the training data and unseen domains. Second, we want our systems to be adaptive, i.e., making it possible to finetune systems with just hundreds of in-domain parallel sentences. We study the domain adaptability of meta-learning when improving the domain robustness of the model. In this paper, we propose a novel approach, RMLNMT (Robust Meta-Learning Framework for Neural Machine Translation Domain Adaptation), which improves the robustness of existing meta-learning models. More specifically, we show how to use a domain classifier in curriculum learning and we integrate the word-level domain mixing model into the meta-learning framework with a balanced sampling strategy. Experiments on EnglishrightarrowGerman and EnglishrightarrowChinese translation show that RMLNMT improves in terms of both domain robustness and domain adaptability in seen and unseen domains. Our source code is available at https://github.com/lavine-lmu/RMLNMT.

Cross-domain Sequential Recommendation (CDSR) has been proposed to enrich user-item interactions by incorporating information from various domains. Despite current progress, the imbalance issue and transition issue hinder further development of CDSR. The former one presents a phenomenon that the interactions in one domain dominate the entire behavior, leading to difficulty in capturing the domain-specific features in the other domain. The latter points to the difficulty in capturing users' cross-domain preferences within the mixed interaction sequence, resulting in poor next-item prediction performance for specific domains. With world knowledge and powerful reasoning ability, Large Language Models (LLMs) partially alleviate the above issues by performing as a generator and an encoder. However, current LLMs-enhanced CDSR methods are still under exploration, which fail to recognize the irrelevant noise and rough profiling problems. Thus, to make peace with the aforementioned challenges, we proposed an LLMs Enhanced Cross-domain Sequential Recommendation with Dual-phase Training ({LLM-EDT}). To address the imbalance issue while introducing less irrelevant noise, we first propose the transferable item augmenter to adaptively generate possible cross-domain behaviors for users. Then, to alleviate the transition issue, we introduce a dual-phase training strategy to empower the domain-specific thread with a domain-shared background. As for the rough profiling problem, we devise a domain-aware profiling module to summarize the user's preference in each domain and adaptively aggregate them to generate comprehensive user profiles. The experiments on three public datasets validate the effectiveness of our proposed LLM-EDT. To ease reproducibility, we have released the detailed code online at {https://anonymous.4open.science/r/LLM-EDT-583F}.

There has been an influx of biomedical domain-specific language models, showing language models pre-trained on biomedical text perform better on biomedical domain benchmarks than those trained on general domain text corpora such as Wikipedia and Books. Yet, most works do not study the factors affecting each domain language application deeply. Additionally, the study of model size on domain-specific models has been mostly missing. We empirically study and evaluate several factors that can affect performance on domain language applications, such as the sub-word vocabulary set, model size, pre-training corpus, and domain transfer. We show consistent improvements on benchmarks with our larger BioMegatron model trained on a larger domain corpus, contributing to our understanding of domain language model applications. We demonstrate noticeable improvements over the previous state-of-the-art (SOTA) on standard biomedical NLP benchmarks of named entity recognition, relation extraction, and question answering. Model checkpoints and code are available at [https://ngc.nvidia.com] and [https://github.com/NVIDIA/NeMo].

Large Language Models(LLMs) have shown exceptional abilities, yet training these models can be quite challenging. There is a strong dependence on the quality of data and finding the best instruction tuning set. Further, the inherent limitations in training methods create substantial difficulties to train relatively smaller models with 7B and 13B parameters. In our research, we suggest an improved training method for these models by utilising knowledge from larger models, such as a mixture of experts (8x7B) architectures. The scale of these larger models allows them to capture a wide range of variations from data alone, making them effective teachers for smaller models. Moreover, we implement a novel post-training domain alignment phase that employs domain-specific expert models to boost domain-specific knowledge during training while preserving the model's ability to generalise. Fine-tuning Mistral 7B and 2x7B with our method surpasses the performance of state-of-the-art language models with more than 7B and 13B parameters: achieving up to 7.9 in MT-Bench and 93.04% on AlpacaEval.

Advancements in DNA sequencing technologies have significantly improved our ability to decode genomic sequences. However, the prediction and interpretation of these sequences remain challenging due to the intricate nature of genetic material. Large language models (LLMs) have introduced new opportunities for biological sequence analysis. Recent developments in genomic language models have underscored the potential of LLMs in deciphering DNA sequences. Nonetheless, existing models often face limitations in robustness and application scope, primarily due to constraints in model structure and training data scale. To address these limitations, we present GENERator, a generative genomic foundation model featuring a context length of 98k base pairs (bp) and 1.2B parameters. Trained on an expansive dataset comprising 386B bp of eukaryotic DNA, the GENERator demonstrates state-of-the-art performance across both established and newly proposed benchmarks. The model adheres to the central dogma of molecular biology, accurately generating protein-coding sequences that translate into proteins structurally analogous to known families. It also shows significant promise in sequence optimization, particularly through the prompt-responsive generation of promoter sequences with specific activity profiles. These capabilities position the GENERator as a pivotal tool for genomic research and biotechnological advancement, enhancing our ability to interpret and predict complex biological systems and enabling precise genomic interventions.

Pretrained Transformer encoders are the dominant approach to sequence labeling. While some alternative architectures-such as xLSTMs, structured state-space models, diffusion models, and adversarial learning-have shown promise in language modeling, few have been applied to sequence labeling, and mostly on flat or simplified tasks. We study how these architectures adapt across tagging tasks that vary in structural complexity, label space, and token dependencies, with evaluation spanning multiple languages. We find that the strong performance previously observed in simpler settings does not always generalize well across languages or datasets, nor does it extend to more complex structured tasks.

State Space Models (SSMs) have become the leading alternative to Transformers for sequence modeling. Their primary advantage is efficiency in long-context and long-form generation, enabled by fixed-size memory and linear scaling of computational complexity. We begin this work by showing a simple theoretical result stating that SSMs cannot accurately solve any ``truly long-form'' generation problem (in a sense we formally define), undermining their main competitive advantage. However, we show that this limitation can be mitigated by allowing SSMs interactive access to external tools. In fact, we show that given the right choice of tool access and problem-dependent training data, SSMs can learn to solve any tractable problem and generalize to arbitrary problem length/complexity (i.e., achieve length generalization). Following our theoretical finding, we demonstrate that tool-augmented SSMs achieve remarkable length generalization on a variety of arithmetic, reasoning, and coding tasks. These findings highlight SSMs as a potential efficient alternative to Transformers in interactive tool-based and agentic settings.

This paper presents Okapi, a new dataset for Natural Language to executable web Application Programming Interfaces (NL2API). This dataset is in English and contains 22,508 questions and 9,019 unique API calls, covering three domains. We define new compositional generalization tasks for NL2API which explore the models' ability to extrapolate from simple API calls in the training set to new and more complex API calls in the inference phase. Also, the models are required to generate API calls that execute correctly as opposed to the existing approaches which evaluate queries with placeholder values. Our dataset is different than most of the existing compositional semantic parsing datasets because it is a non-synthetic dataset studying the compositional generalization in a low-resource setting. Okapi is a step towards creating realistic datasets and benchmarks for studying compositional generalization alongside the existing datasets and tasks. We report the generalization capabilities of sequence-to-sequence baseline models trained on a variety of the SCAN and Okapi datasets tasks. The best model achieves 15\% exact match accuracy when generalizing from simple API calls to more complex API calls. This highlights some challenges for future research. Okapi dataset and tasks are publicly available at https://aka.ms/nl2api/data.

Recently, there has been a significant upsurge of interest in leveraging large language models (LLMs) to assist scientific discovery. However, most LLMs only focus on general science, while they lack domain-specific knowledge, such as chemical molecules and amino acid sequences. To bridge these gaps, we introduce SciDFM, a mixture-of-experts LLM, which is trained from scratch and is able to conduct college-level scientific reasoning and understand molecules and amino acid sequences. We collect a large-scale training corpus containing numerous scientific papers and books from different disciplines as well as data from domain-specific databases. We further fine-tune the pre-trained model on lots of instruction data to improve performances on downstream benchmarks. From experiment results, we show that SciDFM achieves strong performance on general scientific benchmarks such as SciEval and SciQ, and it reaches a SOTA performance on domain-specific benchmarks among models of similar size. We further analyze the expert layers and show that the results of expert selection vary with data from different disciplines. To benefit the broader research community, we open-source SciDFM at https://huggingface.co/OpenDFM/SciDFM-MoE-A5.6B-v1.0.

While Large Language Models (LLMs) demonstrate impressive generation abilities, they frequently struggle when it comes to specialized domains due to their limited domain-specific knowledge. Studies on domain-specific LLMs resort to expanding the vocabulary before fine-tuning on domain-specific corpus, aiming to decrease the sequence length and enhance efficiency during decoding, without thoroughly investigating the results of vocabulary expansion to LLMs over different domains. Our pilot study reveals that expansion with only a subset of the entire vocabulary may lead to superior performance. Guided by the discovery, this paper explores how to identify a vocabulary subset to achieve the optimal results. We introduce VEGAD, an adaptive method that automatically identifies valuable words from a given domain vocabulary. Our method has been validated through experiments on three Chinese datasets, demonstrating its effectiveness. Additionally, we have undertaken comprehensive analyses of the method. The selection of a optimal subset for expansion has shown to enhance performance on both domain-specific tasks and general tasks, showcasing the potential of VEGAD.

Large Language Models (LLMs), including GPT-x and LLaMA2, have achieved remarkable performance in multiple Natural Language Processing (NLP) tasks. Under the premise that protein sequences constitute the protein language, Protein Large Language Models (ProLLMs) trained on protein corpora excel at de novo protein sequence generation. However, as of now, unlike LLMs in NLP, no ProLLM is capable of multiple tasks in the Protein Language Processing (PLP) field. This prompts us to delineate the inherent limitations in current ProLLMs: (i) the lack of natural language capabilities, (ii) insufficient instruction understanding, and (iii) high training resource demands. To address these challenges, we introduce a training framework to transform any general LLM into a ProLLM capable of handling multiple PLP tasks. Specifically, our framework utilizes low-rank adaptation and employs a two-stage training approach, and it is distinguished by its universality, low overhead, and scalability. Through training under this framework, we propose the ProLLaMA model, the first known ProLLM to handle multiple PLP tasks simultaneously. Experiments show that ProLLaMA achieves state-of-the-art results in the unconditional protein sequence generation task. In the controllable protein sequence generation task, ProLLaMA can design novel proteins with desired functionalities. In the protein property prediction task, ProLLaMA achieves nearly 100\% accuracy across many categories. The latter two tasks are beyond the reach of other ProLLMs. Code is available at https://github.com/Lyu6PosHao/ProLLaMA.

In recent years, there have been remarkable advancements in the performance of Transformer-based Large Language Models (LLMs) across various domains. As these LLMs are deployed for increasingly complex tasks, they often face the needs to conduct longer reasoning processes or understanding larger contexts. In these situations, the length generalization failure of LLMs on long sequences become more prominent. Most pre-training schemes truncate training sequences to a fixed length (such as 2048 for LLaMa). LLMs often struggle to generate fluent texts, let alone carry out downstream tasks, after longer contexts, even with relative positional encoding which is designed to cope with this problem. Common solutions such as finetuning on longer corpora often involves daunting hardware and time costs and requires careful training process design. To more efficiently leverage the generation capacity of existing LLMs, we theoretically and empirically investigate the main out-of-distribution (OOD) factors contributing to this problem. Inspired by this diagnosis, we propose a simple yet effective solution for on-the-fly length generalization, LM-Infinite, which involves only a Lambda-shaped attention mask and a distance limit while requiring no parameter updates or learning. We find it applicable to a variety of LLMs using relative-position encoding methods. LM-Infinite is computational efficient with O(n) time and space, and demonstrates consistent fluency and generation quality to as long as 32k tokens on ArXiv and OpenWebText2 datasets, with 2.72x decoding speedup. On downstream task such as passkey retrieval, it continues to work on inputs much longer than training lengths where vanilla models fail immediately.

Although pre-trained language models have exhibited great flexibility and versatility with prompt-based few-shot learning, they suffer from the extensive parameter size and limited applicability for inference. Recent studies have suggested that PLMs be used as dataset generators and a tiny task-specific model be trained to achieve efficient inference. However, their applicability to various domains is limited because they tend to generate domain-specific datasets. In this work, we propose a novel approach to universal domain generalization that generates a dataset regardless of the target domain. This allows for generalization of the tiny task model to any domain that shares the label space, thus enhancing the real-world applicability of the dataset generation paradigm. Our experiments indicate that the proposed method accomplishes generalizability across various domains while using a parameter set that is orders of magnitude smaller than PLMs.

We present Branch-Train-Merge (BTM), a communication-efficient algorithm for embarrassingly parallel training of large language models (LLMs). We show it is possible to independently train subparts of a new class of LLMs on different subsets of the data, eliminating the massive multi-node synchronization currently required to train LLMs. BTM learns a set of independent expert LMs (ELMs), each specialized to a different textual domain, such as scientific or legal text. These ELMs can be added and removed to update data coverage, ensembled to generalize to new domains, or averaged to collapse back to a single LM for efficient inference. New ELMs are learned by branching from (mixtures of) ELMs in the current set, further training the parameters on data for the new domain, and then merging the resulting model back into the set for future use. Experiments show that BTM improves in- and out-of-domain perplexities as compared to GPT-style Transformer LMs, when controlling for training cost. Through extensive analysis, we show that these results are robust to different ELM initialization schemes, but require expert domain specialization; LM ensembles with random data splits do not perform well. We also present a study of scaling BTM into a new corpus of 64 domains (192B whitespace-separated tokens in total); the resulting LM (22.4B total parameters) performs as well as a Transformer LM trained with 2.5 times more compute. These gains grow with the number of domains, suggesting more aggressive parallelism could be used to efficiently train larger models in future work.

Scientific Large Language Models (Sci-LLMs) have emerged as a promising frontier for accelerating biological discovery. However, these models face a fundamental challenge when processing raw biomolecular sequences: the tokenization dilemma. Whether treating sequences as a specialized language, risking the loss of functional motif information, or as a separate modality, introducing formidable alignment challenges, current strategies fundamentally limit their reasoning capacity. We challenge this sequence-centric paradigm by positing that a more effective strategy is to provide Sci-LLMs with high-level structured context derived from established bioinformatics tools, thereby bypassing the need to interpret low-level noisy sequence data directly. Through a systematic comparison of leading Sci-LLMs on biological reasoning tasks, we tested three input modes: sequence-only, context-only, and a combination of both. Our findings are striking: the context-only approach consistently and substantially outperforms all other modes. Even more revealing, the inclusion of the raw sequence alongside its high-level context consistently degrades performance, indicating that raw sequences act as informational noise, even for models with specialized tokenization schemes. These results suggest that the primary strength of existing Sci-LLMs lies not in their nascent ability to interpret biomolecular syntax from scratch, but in their profound capacity for reasoning over structured, human-readable knowledge. Therefore, we argue for reframing Sci-LLMs not as sequence decoders, but as powerful reasoning engines over expert knowledge. This work lays the foundation for a new class of hybrid scientific AI agents, repositioning the developmental focus from direct sequence interpretation towards high-level knowledge synthesis. The code is available at https://github.com/opendatalab-raiser/CoKE.

Machine translation systems are vulnerable to domain mismatch, especially in a low-resource scenario. Out-of-domain translations are often of poor quality and prone to hallucinations, due to exposure bias and the decoder acting as a language model. We adopt two approaches to alleviate this problem: lexical shortlisting restricted by IBM statistical alignments, and hypothesis re-ranking based on similarity. The methods are computationally cheap, widely known, but not extensively experimented on domain adaptation. We demonstrate success on low-resource out-of-domain test sets, however, the methods are ineffective when there is sufficient data or too great domain mismatch. This is due to both the IBM model losing its advantage over the implicitly learned neural alignment, and issues with subword segmentation of out-of-domain words.

Most widely-used pre-trained language models operate on sequences of tokens corresponding to word or subword units. By comparison, token-free models that operate directly on raw text (bytes or characters) have many benefits: they can process text in any language out of the box, they are more robust to noise, and they minimize technical debt by removing complex and error-prone text preprocessing pipelines. Since byte or character sequences are longer than token sequences, past work on token-free models has often introduced new model architectures designed to amortize the cost of operating directly on raw text. In this paper, we show that a standard Transformer architecture can be used with minimal modifications to process byte sequences. We characterize the trade-offs in terms of parameter count, training FLOPs, and inference speed, and show that byte-level models are competitive with their token-level counterparts. We also demonstrate that byte-level models are significantly more robust to noise and perform better on tasks that are sensitive to spelling and pronunciation. As part of our contribution, we release a new set of pre-trained byte-level Transformer models based on the T5 architecture, as well as all code and data used in our experiments.

In text-to-SQL task, seq-to-seq models often lead to sub-optimal performance due to limitations in their architecture. In this paper, we present a simple yet effective approach that adapts transformer-based seq-to-seq model to robust text-to-SQL generation. Instead of inducing constraint to decoder or reformat the task as slot-filling, we propose to train seq-to-seq model with Schema aware Denoising (SeaD), which consists of two denoising objectives that train model to either recover input or predict output from two novel erosion and shuffle noises. These denoising objectives acts as the auxiliary tasks for better modeling the structural data in S2S generation. In addition, we improve and propose a clause-sensitive execution guided (EG) decoding strategy to overcome the limitation of EG decoding for generative model. The experiments show that the proposed method improves the performance of seq-to-seq model in both schema linking and grammar correctness and establishes new state-of-the-art on WikiSQL benchmark. The results indicate that the capacity of vanilla seq-to-seq architecture for text-to-SQL may have been under-estimated.

Many works proposed methods to improve the performance of Neural Machine Translation (NMT) models in a domain/multi-domain adaptation scenario. However, an understanding of how NMT baselines represent text domain information internally is still lacking. Here we analyze the sentence representations learned by NMT Transformers and show that these explicitly include the information on text domains, even after only seeing the input sentences without domains labels. Furthermore, we show that this internal information is enough to cluster sentences by their underlying domains without supervision. We show that NMT models produce clusters better aligned to the actual domains compared to pre-trained language models (LMs). Notably, when computed on document-level, NMT cluster-to-domain correspondence nears 100%. We use these findings together with an approach to NMT domain adaptation using automatically extracted domains. Whereas previous work relied on external LMs for text clustering, we propose re-using the NMT model as a source of unsupervised clusters. We perform an extensive experimental study comparing two approaches across two data scenarios, three language pairs, and both sentence-level and document-level clustering, showing equal or significantly superior performance compared to LMs.

In this work we explore Unsupervised Domain Adaptation (UDA) of pretrained language models for downstream tasks. We introduce UDALM, a fine-tuning procedure, using a mixed classification and Masked Language Model loss, that can adapt to the target domain distribution in a robust and sample efficient manner. Our experiments show that performance of models trained with the mixed loss scales with the amount of available target data and the mixed loss can be effectively used as a stopping criterion during UDA training. Furthermore, we discuss the relationship between A-distance and the target error and explore some limitations of the Domain Adversarial Training approach. Our method is evaluated on twelve domain pairs of the Amazon Reviews Sentiment dataset, yielding 91.74% accuracy, which is an 1.11% absolute improvement over the state-of-the-art.

Unified models aim to support both understanding and generation by encoding images into discrete tokens and processing them alongside text within a single autoregressive framework. This unified design offers architectural simplicity and cross-modal synergy, which facilitates shared parameterization, consistent training objectives, and seamless transfer between modalities. However, the large number of visual tokens required by such models introduces substantial computation and memory overhead, and this inefficiency directly hinders deployment in resource constrained scenarios such as embodied AI systems. In this work, we propose a unified token compression algorithm UniCompress that significantly reduces visual token count while preserving performance on both image understanding and generation tasks. Our method introduces a plug-in compression and decompression mechanism guided with learnable global meta tokens. The framework is lightweight and modular, enabling efficient integration into existing models without full retraining. Experimental results show that our approach reduces image tokens by up to 4 times, achieves substantial gains in inference latency and training cost, and incurs only minimal performance degradation, which demonstrates the promise of token-efficient unified modeling for real world multimodal applications.

The evolving sophistication and intricacies of Large Language Models (LLMs) yield unprecedented advancements, yet they simultaneously demand considerable computational resources and incur significant costs. To alleviate these challenges, this paper introduces a novel, simple, and effective method named ``\growlength'' to accelerate the pretraining process of LLMs. Our method progressively increases the training length throughout the pretraining phase, thereby mitigating computational costs and enhancing efficiency. For instance, it begins with a sequence length of 128 and progressively extends to 4096. This approach enables models to process a larger number of tokens within limited time frames, potentially boosting their performance. In other words, the efficiency gain is derived from training with shorter sequences optimizing the utilization of resources. Our extensive experiments with various state-of-the-art LLMs have revealed that models trained using our method not only converge more swiftly but also exhibit superior performance metrics compared to those trained with existing methods. Furthermore, our method for LLMs pretraining acceleration does not require any additional engineering efforts, making it a practical solution in the realm of LLMs.

Recent work attributes progress in NLP to large language models (LMs) with increased model size and large quantities of pretraining data. Despite this, current state-of-the-art LMs for Hebrew are both under-parameterized and under-trained compared to LMs in other languages. Additionally, previous work on pretrained Hebrew LMs focused on encoder-only models. While the encoder-only architecture is beneficial for classification tasks, it does not cater well for sub-word prediction tasks, such as Named Entity Recognition, when considering the morphologically rich nature of Hebrew. In this paper we argue that sequence-to-sequence generative architectures are more suitable for LLMs in the case of morphologically rich languages (MRLs) such as Hebrew. We demonstrate that by casting tasks in the Hebrew NLP pipeline as text-to-text tasks, we can leverage powerful multilingual, pretrained sequence-to-sequence models as mT5, eliminating the need for a specialized, morpheme-based, separately fine-tuned decoder. Using this approach, our experiments show substantial improvements over previously published results on existing Hebrew NLP benchmarks. These results suggest that multilingual sequence-to-sequence models present a promising building block for NLP for MRLs.

Generalization and robustness to input variation are core desiderata of machine learning research. Language varies along several axes, most importantly, language instance (e.g. French) and domain (e.g. news). While adapting NLP models to new languages within a single domain, or to new domains within a single language, is widely studied, research in joint adaptation is hampered by the lack of evaluation datasets. This prevents the transfer of NLP systems from well-resourced languages and domains to non-dominant language-domain combinations. To address this gap, we introduce M2QA, a multi-domain multilingual question answering benchmark. M2QA includes 13,500 SQuAD 2.0-style question-answer instances in German, Turkish, and Chinese for the domains of product reviews, news, and creative writing. We use M2QA to explore cross-lingual cross-domain performance of fine-tuned models and state-of-the-art LLMs and investigate modular approaches to domain and language adaptation. We witness 1) considerable performance variations across domain-language combinations within model classes and 2) considerable performance drops between source and target language-domain combinations across all model sizes. We demonstrate that M2QA is far from solved, and new methods to effectively transfer both linguistic and domain-specific information are necessary. We make M2QA publicly available at https://github.com/UKPLab/m2qa.

Pre-trained language models (PLMs) have been the de facto paradigm for most natural language processing (NLP) tasks. This also benefits biomedical domain: researchers from informatics, medicine, and computer science (CS) communities propose various PLMs trained on biomedical datasets, e.g., biomedical text, electronic health records, protein, and DNA sequences for various biomedical tasks. However, the cross-discipline characteristics of biomedical PLMs hinder their spreading among communities; some existing works are isolated from each other without comprehensive comparison and discussions. It expects a survey that not only systematically reviews recent advances of biomedical PLMs and their applications but also standardizes terminology and benchmarks. In this paper, we summarize the recent progress of pre-trained language models in the biomedical domain and their applications in biomedical downstream tasks. Particularly, we discuss the motivations and propose a taxonomy of existing biomedical PLMs. Their applications in biomedical downstream tasks are exhaustively discussed. At last, we illustrate various limitations and future trends, which we hope can provide inspiration for the future research of the research community.

Encoder-decoder models have become an effective approach for sequence learning tasks like machine translation, image captioning and speech recognition, but have yet to show competitive results for handwritten text recognition. To this end, we propose an attention-based sequence-to-sequence model. It combines a convolutional neural network as a generic feature extractor with a recurrent neural network to encode both the visual information, as well as the temporal context between characters in the input image, and uses a separate recurrent neural network to decode the actual character sequence. We make experimental comparisons between various attention mechanisms and positional encodings, in order to find an appropriate alignment between the input and output sequence. The model can be trained end-to-end and the optional integration of a hybrid loss allows the encoder to retain an interpretable and usable output, if desired. We achieve competitive results on the IAM and ICFHR2016 READ data sets compared to the state-of-the-art without the use of a language model, and we significantly improve over any recent sequence-to-sequence approaches.

Proteins are essential macromolecules defined by their amino acid sequences, which determine their three-dimensional structures and, consequently, their functions in all living organisms. Therefore, generative protein modeling necessitates a multimodal approach to simultaneously model, understand, and generate both sequences and structures. However, existing methods typically use separate models for each modality, limiting their ability to capture the intricate relationships between sequence and structure. This results in suboptimal performance in tasks that requires joint understanding and generation of both modalities. In this paper, we introduce DPLM-2, a multimodal protein foundation model that extends discrete diffusion protein language model (DPLM) to accommodate both sequences and structures. To enable structural learning with the language model, 3D coordinates are converted to discrete tokens using a lookup-free quantization-based tokenizer. By training on both experimental and high-quality synthetic structures, DPLM-2 learns the joint distribution of sequence and structure, as well as their marginals and conditionals. We also implement an efficient warm-up strategy to exploit the connection between large-scale evolutionary data and structural inductive biases from pre-trained sequence-based protein language models. Empirical evaluation shows that DPLM-2 can simultaneously generate highly compatible amino acid sequences and their corresponding 3D structures eliminating the need for a two-stage generation approach. Moreover, DPLM-2 demonstrates competitive performance in various conditional generation tasks, including folding, inverse folding, and scaffolding with multimodal motif inputs, as well as providing structure-aware representations for predictive tasks.

Neural text generation models are typically trained by maximizing log-likelihood with the sequence cross entropy (CE) loss, which encourages an exact token-by-token match between a target sequence with a generated sequence. Such training objective is sub-optimal when the target sequence is not perfect, e.g., when the target sequence is corrupted with noises, or when only weak sequence supervision is available. To address the challenge, we propose a novel Edit-Invariant Sequence Loss (EISL), which computes the matching loss of a target n-gram with all n-grams in the generated sequence. EISL is designed to be robust to various noises and edits in the target sequences. Moreover, the EISL computation is essentially an approximate convolution operation with target n-grams as kernels, which is easy to implement and efficient to compute with existing libraries. To demonstrate the effectiveness of EISL, we conduct experiments on a wide range of tasks, including machine translation with noisy target sequences, unsupervised text style transfer with only weak training signals, and non-autoregressive generation with non-predefined generation order. Experimental results show our method significantly outperforms the common CE loss and other strong baselines on all the tasks. EISL has a simple API that can be used as a drop-in replacement of the CE loss: https://github.com/guangyliu/EISL.

Transformer models have been successful in various sequence processing tasks, but the self-attention mechanism's computational cost limits its practicality for long sequences. Although there are existing attention variants that improve computational efficiency, they have a limited ability to abstract global information effectively based on their hand-crafted mixing strategies. On the other hand, state-space models (SSMs) are tailored for long sequences but cannot capture complicated local information. Therefore, the combination of them as a unified token mixer is a trend in recent long-sequence models. However, the linearized attention degrades performance significantly even when equipped with SSMs. To address the issue, we propose a new method called LongVQ. LongVQ uses the vector quantization (VQ) technique to compress the global abstraction as a length-fixed codebook, enabling the linear-time computation of the attention matrix. This technique effectively maintains dynamic global and local patterns, which helps to complement the lack of long-range dependency issues. Our experiments on the Long Range Arena benchmark, autoregressive language modeling, and image and speech classification demonstrate the effectiveness of LongVQ. Our model achieves significant improvements over other sequence models, including variants of Transformers, Convolutions, and recent State Space Models.

Recent machine translation algorithms mainly rely on parallel corpora. However, since the availability of parallel corpora remains limited, only some resource-rich language pairs can benefit from them. We constructed a parallel corpus for English-Japanese, for which the amount of publicly available parallel corpora is still limited. We constructed the parallel corpus by broadly crawling the web and automatically aligning parallel sentences. Our collected corpus, called JParaCrawl, amassed over 8.7 million sentence pairs. We show how it includes a broader range of domains and how a neural machine translation model trained with it works as a good pre-trained model for fine-tuning specific domains. The pre-training and fine-tuning approaches achieved or surpassed performance comparable to model training from the initial state and reduced the training time. Additionally, we trained the model with an in-domain dataset and JParaCrawl to show how we achieved the best performance with them. JParaCrawl and the pre-trained models are freely available online for research purposes.

Tables stored in databases and tables which are present in web pages and articles account for a large part of semi-structured data that is available on the internet. It then becomes pertinent to develop a modeling approach with large language models (LLMs) that can be used to solve diverse table tasks such as semantic parsing, question answering as well as classification problems. Traditionally, there existed separate models specialized for each task individually. It raises the question of how far can we go to build a unified model that works well on some table tasks without significant degradation on others. To that end, we attempt at creating a shared modeling approach in the pretraining stage with encoder-decoder style LLMs that can cater to diverse tasks. We evaluate our approach that continually pretrains and finetunes different model families of T5 with data from tables and surrounding context, on these downstream tasks at different model scales. Through multiple ablation studies, we observe that our pretraining with self-supervised objectives can significantly boost the performance of the models on these tasks. As an example of one improvement, we observe that the instruction finetuned public models which come specialized on text question answering (QA) and have been trained on table data still have room for improvement when it comes to table specific QA. Our work is the first attempt at studying the advantages of a unified approach to table specific pretraining when scaled from 770M to 11B sequence to sequence models while also comparing the instruction finetuned variants of the models.

We introduce Domain-specific Masks for Generalization, a model for improving both in-domain and out-of-domain generalization performance. For domain generalization, the goal is to learn from a set of source domains to produce a single model that will best generalize to an unseen target domain. As such, many prior approaches focus on learning representations which persist across all source domains with the assumption that these domain agnostic representations will generalize well. However, often individual domains contain characteristics which are unique and when leveraged can significantly aid in-domain recognition performance. To produce a model which best generalizes to both seen and unseen domains, we propose learning domain specific masks. The masks are encouraged to learn a balance of domain-invariant and domain-specific features, thus enabling a model which can benefit from the predictive power of specialized features while retaining the universal applicability of domain-invariant features. We demonstrate competitive performance compared to naive baselines and state-of-the-art methods on both PACS and DomainNet.

Large-scale neural language models exhibit a remarkable capacity for in-context learning (ICL): they can infer novel functions from datasets provided as input. Most of our current understanding of when and how ICL arises comes from LMs trained on extremely simple learning problems like linear regression and associative recall. There remains a significant gap between these model problems and the "real" ICL exhibited by LMs trained on large text corpora, which involves not just retrieval and function approximation but free-form generation of language and other structured outputs. In this paper, we study ICL through the lens of a new family of model problems we term in context language learning (ICLL). In ICLL, LMs are presented with a set of strings from a formal language, and must generate additional strings from the same language. We focus on in-context learning of regular languages generated by random finite automata. We evaluate a diverse set of neural sequence models (including several RNNs, Transformers, and state-space model variants) on regular ICLL tasks, aiming to answer three questions: (1) Which model classes are empirically capable of ICLL? (2) What algorithmic solutions do successful models implement to perform ICLL? (3) What architectural changes can improve ICLL in less performant models? We first show that Transformers significantly outperform neural sequence models with recurrent or convolutional representations on ICLL tasks. Next, we provide evidence that their ability to do so relies on specialized "n-gram heads" (higher-order variants of induction heads) that compute input-conditional next-token distributions. Finally, we show that hard-wiring these heads into neural models improves performance not just on ICLL, but natural language modeling -- improving the perplexity of 340M-parameter models by up to 1.14 points (6.7%) on the SlimPajama dataset.

We present HILGEN, a Hierarchically-Informed Data Generation approach that combines domain knowledge from the Unified Medical Language System (UMLS) with synthetic data generated by large language models (LLMs), specifically GPT-3.5. Our approach leverages UMLS's hierarchical structure to expand training data with related concepts, while incorporating contextual information from LLMs through targeted prompts aimed at automatically generating synthetic examples for sparsely occurring named entities. The performance of the HILGEN approach was evaluated across four biomedical NER datasets (MIMIC III, BC5CDR, NCBI-Disease, and Med-Mentions) using BERT-Large and DANN (Data Augmentation with Nearest Neighbor Classifier) models, applying various data generation strategies, including UMLS, GPT-3.5, and their best ensemble. For the BERT-Large model, incorporating UMLS led to an average F1 score improvement of 40.36%, while using GPT-3.5 resulted in a comparable average increase of 40.52%. The Best-Ensemble approach using BERT-Large achieved the highest improvement, with an average increase of 42.29%. DANN model's F1 score improved by 22.74% on average using the UMLS-only approach. The GPT-3.5-based method resulted in a 21.53% increase, and the Best-Ensemble DANN model showed a more notable improvement, with an average increase of 25.03%. Our proposed HILGEN approach improves NER performance in few-shot settings without requiring additional manually annotated data. Our experiments demonstrate that an effective strategy for optimizing biomedical NER is to combine biomedical knowledge curated in the past, such as the UMLS, and generative LLMs to create synthetic training instances. Our future research will focus on exploring additional innovative synthetic data generation strategies for further improving NER performance.

We introduce~Domain2Vec, a novel approach that decomposes any dataset into a linear combination of several meta-domains, a new concept designed to capture the key underlying features of datasets. Domain2Vec maintains a vocabulary of meta-domains and uses a classifier to decompose any given dataset into a domain vector that corresponds to a distribution over this vocabulary. These domain vectors enable the identification of the optimal data mixture for language model (LM) pretraining in a training-free manner under the \textbf{Distribution Alignment Assumption} (DA^{2}), which suggests that when the data distributions of the training set and the validation set are better aligned, a lower validation loss is achieved. Moreover, Domain2vec can be seamlessly integrated into previous works to model the relationship between domain vectors and LM performance, greatly enhancing the efficiency and scalability of previous methods. Extensive experiments demonstrate that Domain2Vec helps find the data mixture that enhances downstream task performance with minimal computational overhead. Specifically, Domain2Vec achieves the same validation loss on Pile-CC using only 51.5% of the computation required when training on the original mixture of The Pile dataset. Under equivalent compute budget, Domain2Vec improves downstream performance by an average of 2.83%.

Merging Large Language Models (LLMs) is a cost-effective technique for combining multiple expert LLMs into a single versatile model, retaining the expertise of the original ones. However, current approaches often overlook the importance of safety alignment during merging, leading to highly misaligned models. This work investigates the effects of model merging on alignment. We evaluate several popular model merging techniques, demonstrating that existing methods do not only transfer domain expertise but also propagate misalignment. We propose a simple two-step approach to address this problem: (i) generating synthetic safety and domain-specific data, and (ii) incorporating these generated data into the optimization process of existing data-aware model merging techniques. This allows us to treat alignment as a skill that can be maximized in the resulting merged LLM. Our experiments illustrate the effectiveness of integrating alignment-related data during merging, resulting in models that excel in both domain expertise and alignment.