Daily Papers

Autoregressive (AR) models, common in sequence generation, are limited in many biological tasks such as de novo peptide sequencing and protein modeling by their unidirectional nature, failing to capture crucial global bidirectional token dependencies. Non-Autoregressive (NAR) models offer holistic, bidirectional representations but face challenges with generative coherence and scalability. To transcend this, we propose a hybrid framework enhancing AR generation by dynamically integrating rich contextual information from non-autoregressive mechanisms. Our approach couples a shared input encoder with two decoders: a non-autoregressive one learning latent bidirectional biological features, and an AR decoder synthesizing the biological sequence by leveraging these bidirectional features. A novel cross-decoder attention module enables the AR decoder to iteratively query and integrate these bidirectional features, enriching its predictions. This synergy is cultivated via a tailored training strategy with importance annealing for balanced objectives and cross-decoder gradient blocking for stable, focused learning. Evaluations on a demanding nine-species benchmark of de novo peptide sequencing show that our model substantially surpasses AR and NAR baselines. It uniquely harmonizes AR stability with NAR contextual awareness, delivering robust, superior performance on diverse downstream data. This research advances biological sequence modeling techniques and contributes a novel architectural paradigm for augmenting AR models with enhanced bidirectional understanding for complex sequence generation. Code is available at https://github.com/BEAM-Labs/denovo.

Motivated by the success of T5 (Text-To-Text Transfer Transformer) in pre-trained natural language processing models, we propose a unified-modal SpeechT5 framework that explores the encoder-decoder pre-training for self-supervised speech/text representation learning. The SpeechT5 framework consists of a shared encoder-decoder network and six modal-specific (speech/text) pre/post-nets. After preprocessing the input speech/text through the pre-nets, the shared encoder-decoder network models the sequence-to-sequence transformation, and then the post-nets generate the output in the speech/text modality based on the output of the decoder. Leveraging large-scale unlabeled speech and text data, we pre-train SpeechT5 to learn a unified-modal representation, hoping to improve the modeling capability for both speech and text. To align the textual and speech information into this unified semantic space, we propose a cross-modal vector quantization approach that randomly mixes up speech/text states with latent units as the interface between encoder and decoder. Extensive evaluations show the superiority of the proposed SpeechT5 framework on a wide variety of spoken language processing tasks, including automatic speech recognition, speech synthesis, speech translation, voice conversion, speech enhancement, and speaker identification. We release our code and model at https://github.com/microsoft/SpeechT5.

Customization of text-to-image models enables users to insert custom concepts and generate the concepts in unseen settings. Existing methods either rely on costly test-time optimization or train encoders on single-image training datasets without multi-image supervision, leading to worse image quality. We propose a simple approach that addresses both limitations. We first leverage existing text-to-image models and 3D datasets to create a high-quality Synthetic Customization Dataset (SynCD) consisting of multiple images of the same object in different lighting, backgrounds, and poses. We then propose a new encoder architecture based on shared attention mechanisms that better incorporate fine-grained visual details from input images. Finally, we propose a new inference technique that mitigates overexposure issues during inference by normalizing the text and image guidance vectors. Through extensive experiments, we show that our model, trained on the synthetic dataset with the proposed encoder and inference algorithm, outperforms existing tuning-free methods on standard customization benchmarks.

Structured representations such as keypoints are widely used in pose transfer, conditional image generation, animation, and 3D reconstruction. However, their supervised learning requires expensive annotation for each target domain. We propose a self-supervised method that learns to disentangle object structure from the appearance with a graph of 2D keypoints linked by straight edges. Both the keypoint location and their pairwise edge weights are learned, given only a collection of images depicting the same object class. The resulting graph is interpretable, for example, AutoLink recovers the human skeleton topology when applied to images showing people. Our key ingredients are i) an encoder that predicts keypoint locations in an input image, ii) a shared graph as a latent variable that links the same pairs of keypoints in every image, iii) an intermediate edge map that combines the latent graph edge weights and keypoint locations in a soft, differentiable manner, and iv) an inpainting objective on randomly masked images. Although simpler, AutoLink outperforms existing self-supervised methods on the established keypoint and pose estimation benchmarks and paves the way for structure-conditioned generative models on more diverse datasets. Project website: https://xingzhehe.github.io/autolink/.

Objective: While recent advances in text-conditioned generative models have enabled the synthesis of realistic medical images, progress has been largely confined to 2D modalities such as chest X-rays. Extending text-to-image generation to volumetric Computed Tomography (CT) remains a significant challenge, due to its high dimensionality, anatomical complexity, and the absence of robust frameworks that align vision-language data in 3D medical imaging. Methods: We introduce a novel architecture for Text-to-CT generation that combines a latent diffusion model with a 3D contrastive vision-language pretraining scheme. Our approach leverages a dual-encoder CLIP-style model trained on paired CT volumes and radiology reports to establish a shared embedding space, which serves as the conditioning input for generation. CT volumes are compressed into a low-dimensional latent space via a pretrained volumetric VAE, enabling efficient 3D denoising diffusion without requiring external super-resolution stages. Results: We evaluate our method on the CT-RATE dataset and conduct a comprehensive assessment of image fidelity, clinical relevance, and semantic alignment. Our model achieves competitive performance across all tasks, significantly outperforming prior baselines for text-to-CT generation. Moreover, we demonstrate that CT scans synthesized by our framework can effectively augment real data, improving downstream diagnostic performance. Conclusion: Our results show that modality-specific vision-language alignment is a key component for high-quality 3D medical image generation. By integrating contrastive pretraining and volumetric diffusion, our method offers a scalable and controllable solution for synthesizing clinically meaningful CT volumes from text, paving the way for new applications in data augmentation, medical education, and automated clinical simulation.

Multimodal learning aims to build models that can process and relate information from multiple modalities. Despite years of development in this field, it still remains challenging to design a unified network for processing various modalities (e.g. natural language, 2D images, 3D point clouds, audio, video, time series, tabular data) due to the inherent gaps among them. In this work, we propose a framework, named Meta-Transformer, that leverages a frozen encoder to perform multimodal perception without any paired multimodal training data. In Meta-Transformer, the raw input data from various modalities are mapped into a shared token space, allowing a subsequent encoder with frozen parameters to extract high-level semantic features of the input data. Composed of three main components: a unified data tokenizer, a modality-shared encoder, and task-specific heads for downstream tasks, Meta-Transformer is the first framework to perform unified learning across 12 modalities with unpaired data. Experiments on different benchmarks reveal that Meta-Transformer can handle a wide range of tasks including fundamental perception (text, image, point cloud, audio, video), practical application (X-Ray, infrared, hyperspectral, and IMU), and data mining (graph, tabular, and time-series). Meta-Transformer indicates a promising future for developing unified multimodal intelligence with transformers. Code will be available at https://github.com/invictus717/MetaTransformer

Automated segmentation of brain tumors from 3D magnetic resonance images (MRIs) is necessary for the diagnosis, monitoring, and treatment planning of the disease. Manual delineation practices require anatomical knowledge, are expensive, time consuming and can be inaccurate due to human error. Here, we describe a semantic segmentation network for tumor subregion segmentation from 3D MRIs based on encoder-decoder architecture. Due to a limited training dataset size, a variational auto-encoder branch is added to reconstruct the input image itself in order to regularize the shared decoder and impose additional constraints on its layers. The current approach won 1st place in the BraTS 2018 challenge.

Natural Language Generation (NLG) accepts input data in the form of images, videos, or text and generates corresponding natural language text as output. Existing NLG methods mainly adopt a supervised approach and rely heavily on coupled data-to-text pairs. However, for many targeted scenarios and for non-English languages, sufficient quantities of labeled data are often not available. To relax the dependency on labeled data of downstream tasks, we propose an intuitive and effective zero-shot learning framework, ZeroNLG, which can deal with multiple NLG tasks, including image-to-text (image captioning), video-to-text (video captioning), and text-to-text (neural machine translation), across English, Chinese, German, and French within a unified framework. ZeroNLG does not require any labeled downstream pairs for training. During training, ZeroNLG (i) projects different domains (across modalities and languages) to corresponding coordinates in a shared common latent space; (ii) bridges different domains by aligning their corresponding coordinates in this space; and (iii) builds an unsupervised multilingual auto-encoder to learn to generate text by reconstructing the input text given its coordinate in shared latent space. Consequently, during inference, based on the data-to-text pipeline, ZeroNLG can generate target sentences across different languages given the coordinate of input data in the common space. Within this unified framework, given visual (imaging or video) data as input, ZeroNLG can perform zero-shot visual captioning; given textual sentences as input, ZeroNLG can perform zero-shot machine translation. We present the results of extensive experiments on twelve NLG tasks, showing that, without using any labeled downstream pairs for training, ZeroNLG generates high-quality and believable outputs and significantly outperforms existing zero-shot methods.

This paper presents ThinkDiff, a novel alignment paradigm that empowers text-to-image diffusion models with multimodal in-context understanding and reasoning capabilities by integrating the strengths of vision-language models (VLMs). Existing multimodal diffusion finetuning methods largely focus on pixel-level reconstruction rather than in-context reasoning, and are constrained by the complexity and limited availability of reasoning-based datasets. ThinkDiff addresses these challenges by leveraging vision-language training as a proxy task, aligning VLMs with the decoder of an encoder-decoder large language model (LLM) instead of a diffusion decoder. This proxy task builds on the observation that the LLM decoder shares the same input feature space with diffusion decoders that use the corresponding LLM encoder for prompt embedding. As a result, aligning VLMs with diffusion decoders can be simplified through alignment with the LLM decoder. Without complex training and datasets, ThinkDiff effectively unleashes understanding, reasoning, and composing capabilities in diffusion models. Experiments demonstrate that ThinkDiff significantly improves accuracy from 19.2% to 46.3% on the challenging CoBSAT benchmark for multimodal in-context reasoning generation, with only 5 hours of training on 4 A100 GPUs. Additionally, ThinkDiff demonstrates exceptional performance in composing multiple images and texts into logically coherent images. Project page: https://mizhenxing.github.io/ThinkDiff.

Recent advances in speech-enabled language models have shown promising results in building intelligent voice assistants. However, most existing approaches rely on large-scale paired speech-text data and extensive computational resources, which pose challenges in terms of scalability and accessibility. In this paper, we present TESU-LLM, a novel framework that enables training speech-capable language models using only text data. Our key insight is to leverage a unified encoder that maps semantically equivalent text and speech inputs to a shared latent space. By aligning the encoder output with the embedding space of a LLM via a lightweight projection network, we enable the model to generalize from text-only supervision to speech-based inference. Despite being trained exclusively on text, TESU-LLM achieves strong performance on various speech-related benchmarks, comparable to baseline methods trained with large-scale multimodal datasets and substantial computational resources. These results highlight the effectiveness and efficiency of our approach, offering a scalable path toward building speech LLMs without speech data.

Dual encoder architectures like CLIP models map two types of inputs into a shared embedding space and predict similarities between them. Despite their success, it is, however, not understood how these models compare their two inputs. Common first-order feature-attribution methods can only provide limited insights into dual-encoders since their predictions depend on feature-interactions rather than on individual features. In this paper, we first derive a second-order method enabling the attribution of predictions by any differentiable dual encoder onto feature-interactions between its inputs. Second, we apply our method to CLIP models and show that they learn fine-grained correspondences between parts of captions and regions in images. They match objects across input modes also account for mismatches. This visual-linguistic grounding ability, however, varies heavily between object classes and exhibits pronounced out-of-domain effects. We can identify individual errors as well as systematic failure categories including object coverage, unusual scenes and correlated contexts.

To address key limitations in human-object interaction (HOI) video generation -- specifically the reliance on curated motion data, limited generalization to novel objects/scenarios, and restricted accessibility -- we introduce HunyuanVideo-HOMA, a weakly conditioned multimodal-driven framework. HunyuanVideo-HOMA enhances controllability and reduces dependency on precise inputs through sparse, decoupled motion guidance. It encodes appearance and motion signals into the dual input space of a multimodal diffusion transformer (MMDiT), fusing them within a shared context space to synthesize temporally consistent and physically plausible interactions. To optimize training, we integrate a parameter-space HOI adapter initialized from pretrained MMDiT weights, preserving prior knowledge while enabling efficient adaptation, and a facial cross-attention adapter for anatomically accurate audio-driven lip synchronization. Extensive experiments confirm state-of-the-art performance in interaction naturalness and generalization under weak supervision. Finally, HunyuanVideo-HOMA demonstrates versatility in text-conditioned generation and interactive object manipulation, supported by a user-friendly demo interface. The project page is at https://anonymous.4open.science/w/homa-page-0FBE/.

The Fon language, spoken by an average 2 million of people, is a truly low-resourced African language, with a limited online presence, and existing datasets (just to name but a few). Multitask learning is a learning paradigm that aims to improve the generalization capacity of a model by sharing knowledge across different but related tasks: this could be prevalent in very data-scarce scenarios. In this paper, we present the first explorative approach to multitask learning, for model capabilities enhancement in Natural Language Processing for the Fon language. Specifically, we explore the tasks of Named Entity Recognition (NER) and Part of Speech Tagging (POS) for Fon. We leverage two language model heads as encoders to build shared representations for the inputs, and we use linear layers blocks for classification relative to each task. Our results on the NER and POS tasks for Fon, show competitive (or better) performances compared to several multilingual pretrained language models finetuned on single tasks. Additionally, we perform a few ablation studies to leverage the efficiency of two different loss combination strategies and find out that the equal loss weighting approach works best in our case. Our code is open-sourced at https://github.com/bonaventuredossou/multitask_fon.

Most speech recognition tasks pertain to mapping words across two modalities: acoustic and orthographic. In this work, we suggest learning encoders that map variable-length, acoustic or phonetic, sequences that represent words into fixed-dimensional vectors in a shared latent space; such that the distance between two word vectors represents how closely the two words sound. Instead of directly learning the distances between word vectors, we employ weak supervision and model a binary classification task to predict whether two inputs, one of each modality, represent the same word given a distance threshold. We explore various deep-learning models, bimodal contrastive losses, and techniques for mining hard negative examples such as the semi-supervised technique of self-labeling. Our best model achieves an F_1 score of 0.95 for the binary classification task.

Recently, visually-situated text parsing (VsTP) has experienced notable advancements, driven by the increasing demand for automated document understanding and the emergence of Generative Large Language Models (LLMs) capable of processing document-based questions. Various methods have been proposed to address the challenging problem of VsTP. However, due to the diversified targets and heterogeneous schemas, previous works usually design task-specific architectures and objectives for individual tasks, which inadvertently leads to modal isolation and complex workflow. In this paper, we propose a unified paradigm for parsing visually-situated text across diverse scenarios. Specifically, we devise a universal model, called OmniParser, which can simultaneously handle three typical visually-situated text parsing tasks: text spotting, key information extraction, and table recognition. In OmniParser, all tasks share the unified encoder-decoder architecture, the unified objective: point-conditioned text generation, and the unified input & output representation: prompt & structured sequences. Extensive experiments demonstrate that the proposed OmniParser achieves state-of-the-art (SOTA) or highly competitive performances on 7 datasets for the three visually-situated text parsing tasks, despite its unified, concise design. The code is available at https://github.com/AlibabaResearch/AdvancedLiterateMachinery.

We present Unified-IO 2, the first autoregressive multimodal model that is capable of understanding and generating image, text, audio, and action. To unify different modalities, we tokenize inputs and outputs -- images, text, audio, action, bounding boxes, etc., into a shared semantic space and then process them with a single encoder-decoder transformer model. Since training with such diverse modalities is challenging, we propose various architectural improvements to stabilize model training. We train our model from scratch on a large multimodal pre-training corpus from diverse sources with a multimodal mixture of denoisers objective. To learn an expansive set of skills, such as following multimodal instructions, we construct and finetune on an ensemble of 120 datasets with prompts and augmentations. With a single unified model, Unified-IO 2 achieves state-of-the-art performance on the GRIT benchmark and strong results in more than 35 benchmarks, including image generation and understanding, natural language understanding, video and audio understanding, and robotic manipulation. We release all our models to the research community.