The recent advancement of spatial transcriptomics (ST) allows to characterize spatial gene expression within tissue for discovery research. However, current ST platforms suffer from low resolution, hindering in-depth understanding of spatial gene expression. Super-resolution approaches promise to enhance ST maps by integrating histology images with gene expressions of profiled tissue spots. However, current super-resolution methods are limited by restoration uncertainty and mode collapse. Although diffusion models have shown promise in capturing complex interactions between multi-modal conditions, it remains a challenge to integrate histology images and gene expression for super-resolved ST maps. This paper proposes a cross-modal conditional diffusion model for super-resolving ST maps with the guidance of histology images. Specifically, we design a multi-modal disentangling network with cross-modal adaptive modulation to utilize complementary information from histology images and spatial gene expression. Moreover, we propose a dynamic cross-attention modelling strategy to extract hierarchical cell-to-tissue information from histology images. Lastly, we propose a co-expression-based gene-correlation graph network to model the co-expression relationship of multiple genes. Experiments show that our method outperforms other state-of-the-art methods in ST super-resolution on three public datasets.
Retrieval-Augmented Generation (RAG) merges retrieval methods with deep learning advancements to address the static limitations of large language models (LLMs) by enabling the dynamic integration of up-to-date external information. This methodology, focusing primarily on the text domain, provides a cost-effective solution to the generation of plausible but incorrect responses by LLMs, thereby enhancing the accuracy and reliability of their outputs through the use of real-world data. As RAG grows in complexity and incorporates multiple concepts that can influence its performance, this paper organizes the RAG paradigm into four categories: pre-retrieval, retrieval, post-retrieval, and generation, offering a detailed perspective from the retrieval viewpoint. It outlines RAG's evolution and discusses the field's progression through the analysis of significant studies. Additionally, the paper introduces evaluation methods for RAG, addressing the challenges faced and proposing future research directions. By offering an organized framework and categorization, the study aims to consolidate existing research on RAG, clarify its technological underpinnings, and highlight its potential to broaden the adaptability and applications of LLMs.
Pre-trained Language Models (PLMs) which are trained on large text corpus via self-supervised learning method, have yielded promising performance on various tasks in Natural Language Processing (NLP). However, though PLMs with huge parameters can effectively possess rich knowledge learned from massive training text and benefit downstream tasks at the fine-tuning stage, they still have some limitations such as poor reasoning ability due to the lack of external knowledge. Research has been dedicated to incorporating knowledge into PLMs to tackle these issues. In this paper, we present a comprehensive review of Knowledge-Enhanced Pre-trained Language Models (KE-PLMs) to provide a clear insight into this thriving field. We introduce appropriate taxonomies respectively for Natural Language Understanding (NLU) and Natural Language Generation (NLG) to highlight these two main tasks of NLP. For NLU, we divide the types of knowledge into four categories: linguistic knowledge, text knowledge, knowledge graph (KG), and rule knowledge. The KE-PLMs for NLG are categorized into KG-based and retrieval-based methods. Finally, we point out some promising future directions of KE-PLMs.
Few-shot learning (FSL) methods typically assume clean support sets with accurately labeled samples when training on novel classes. This assumption can often be unrealistic: support sets, no matter how small, can still include mislabeled samples. Robustness to label noise is therefore essential for FSL methods to be practical, but this problem surprisingly remains largely unexplored. To address mislabeled samples in FSL settings, we make several technical contributions. (1) We offer simple, yet effective, feature aggregation methods, improving the prototypes used by ProtoNet, a popular FSL technique. (2) We describe a novel Transformer model for Noisy Few-Shot Learning (TraNFS). TraNFS leverages a transformer's attention mechanism to weigh mislabeled versus correct samples. (3) Finally, we extensively test these methods on noisy versions of MiniImageNet and TieredImageNet. Our results show that TraNFS is on-par with leading FSL methods on clean support sets, yet outperforms them, by far, in the presence of label noise.
Spatio-temporal representation learning is critical for video self-supervised representation. Recent approaches mainly use contrastive learning and pretext tasks. However, these approaches learn representation by discriminating sampled instances via feature similarity in the latent space while ignoring the intermediate state of the learned representations, which limits the overall performance. In this work, taking into account the degree of similarity of sampled instances as the intermediate state, we propose a novel pretext task - spatio-temporal overlap rate (STOR) prediction. It stems from the observation that humans are capable of discriminating the overlap rates of videos in space and time. This task encourages the model to discriminate the STOR of two generated samples to learn the representations. Moreover, we employ a joint optimization combining pretext tasks with contrastive learning to further enhance the spatio-temporal representation learning. We also study the mutual influence of each component in the proposed scheme. Extensive experiments demonstrate that our proposed STOR task can favor both contrastive learning and pretext tasks. The joint optimization scheme can significantly improve the spatio-temporal representation in video understanding. The code is available at //github.com/Katou2/CSTP.
Contrastive learning allows us to flexibly define powerful losses by contrasting positive pairs from sets of negative samples. Recently, the principle has also been used to learn cross-modal embeddings for video and text, yet without exploiting its full potential. In particular, previous losses do not take the intra-modality similarities into account, which leads to inefficient embeddings, as the same content is mapped to multiple points in the embedding space. With CrossCLR, we present a contrastive loss that fixes this issue. Moreover, we define sets of highly related samples in terms of their input embeddings and exclude them from the negative samples to avoid issues with false negatives. We show that these principles consistently improve the quality of the learned embeddings. The joint embeddings learned with CrossCLR extend the state of the art in video-text retrieval on Youcook2 and LSMDC datasets and in video captioning on Youcook2 dataset by a large margin. We also demonstrate the generality of the concept by learning improved joint embeddings for other pairs of modalities.
Deep learning-based semi-supervised learning (SSL) algorithms have led to promising results in medical images segmentation and can alleviate doctors' expensive annotations by leveraging unlabeled data. However, most of the existing SSL algorithms in literature tend to regularize the model training by perturbing networks and/or data. Observing that multi/dual-task learning attends to various levels of information which have inherent prediction perturbation, we ask the question in this work: can we explicitly build task-level regularization rather than implicitly constructing networks- and/or data-level perturbation-and-transformation for SSL? To answer this question, we propose a novel dual-task-consistency semi-supervised framework for the first time. Concretely, we use a dual-task deep network that jointly predicts a pixel-wise segmentation map and a geometry-aware level set representation of the target. The level set representation is converted to an approximated segmentation map through a differentiable task transform layer. Simultaneously, we introduce a dual-task consistency regularization between the level set-derived segmentation maps and directly predicted segmentation maps for both labeled and unlabeled data. Extensive experiments on two public datasets show that our method can largely improve the performance by incorporating the unlabeled data. Meanwhile, our framework outperforms the state-of-the-art semi-supervised medical image segmentation methods. Code is available at: //github.com/Luoxd1996/DTC
Most object recognition approaches predominantly focus on learning discriminative visual patterns while overlooking the holistic object structure. Though important, structure modeling usually requires significant manual annotations and therefore is labor-intensive. In this paper, we propose to "look into object" (explicitly yet intrinsically model the object structure) through incorporating self-supervisions into the traditional framework. We show the recognition backbone can be substantially enhanced for more robust representation learning, without any cost of extra annotation and inference speed. Specifically, we first propose an object-extent learning module for localizing the object according to the visual patterns shared among the instances in the same category. We then design a spatial context learning module for modeling the internal structures of the object, through predicting the relative positions within the extent. These two modules can be easily plugged into any backbone networks during training and detached at inference time. Extensive experiments show that our look-into-object approach (LIO) achieves large performance gain on a number of benchmarks, including generic object recognition (ImageNet) and fine-grained object recognition tasks (CUB, Cars, Aircraft). We also show that this learning paradigm is highly generalizable to other tasks such as object detection and segmentation (MS COCO). Project page: //github.com/JDAI-CV/LIO.
As a crucial component in task-oriented dialog systems, the Natural Language Generation (NLG) module converts a dialog act represented in a semantic form into a response in natural language. The success of traditional template-based or statistical models typically relies on heavily annotated data, which is infeasible for new domains. Therefore, it is pivotal for an NLG system to generalize well with limited labelled data in real applications. To this end, we present FewShotWoz, the first NLG benchmark to simulate the few-shot learning setting in task-oriented dialog systems. Further, we develop the SC-GPT model. It is pre-trained on a large set of annotated NLG corpus to acquire the controllable generation ability, and fine-tuned with only a few domain-specific labels to adapt to new domains. Experiments on FewShotWoz and the large Multi-Domain-WOZ datasets show that the proposed SC-GPT significantly outperforms existing methods, measured by various automatic metrics and human evaluations.
The recent proliferation of knowledge graphs (KGs) coupled with incomplete or partial information, in the form of missing relations (links) between entities, has fueled a lot of research on knowledge base completion (also known as relation prediction). Several recent works suggest that convolutional neural network (CNN) based models generate richer and more expressive feature embeddings and hence also perform well on relation prediction. However, we observe that these KG embeddings treat triples independently and thus fail to cover the complex and hidden information that is inherently implicit in the local neighborhood surrounding a triple. To this effect, our paper proposes a novel attention based feature embedding that captures both entity and relation features in any given entity's neighborhood. Additionally, we also encapsulate relation clusters and multihop relations in our model. Our empirical study offers insights into the efficacy of our attention based model and we show marked performance gains in comparison to state of the art methods on all datasets.
Recently, ensemble has been applied to deep metric learning to yield state-of-the-art results. Deep metric learning aims to learn deep neural networks for feature embeddings, distances of which satisfy given constraint. In deep metric learning, ensemble takes average of distances learned by multiple learners. As one important aspect of ensemble, the learners should be diverse in their feature embeddings. To this end, we propose an attention-based ensemble, which uses multiple attention masks, so that each learner can attend to different parts of the object. We also propose a divergence loss, which encourages diversity among the learners. The proposed method is applied to the standard benchmarks of deep metric learning and experimental results show that it outperforms the state-of-the-art methods by a significant margin on image retrieval tasks.