Gene therapies aim to address the root causes of diseases, particularly those stemming from rare genetic defects that can be life-threatening or severely debilitating. While there has been notable progress in the development of gene therapies in recent years, understanding their long-term effectiveness remains challenging due to a lack of data on long-term outcomes, especially during the early stages of their introduction to the market. To address the critical question of estimating long-term efficacy without waiting for the completion of lengthy clinical trials, we propose a novel Bayesian framework. This framework selects pertinent data from external sources, often early-phase clinical trials with more comprehensive longitudinal efficacy data that could lead to an improved inference of the long-term efficacy outcome. We apply this methodology to predict the long-term factor IX (FIX) levels of HEMGENIX (etranacogene dezaparvovec), the first FDA-approved gene therapy to treat adults with severe Hemophilia B, in a phase 3 study. Our application showcases the capability of the framework to estimate the 5-year FIX levels following HEMGENIX therapy, demonstrating sustained FIX levels induced by HEMGENIX infusion. Additionally, we provide theoretical insights into the methodology by establishing its posterior convergence properties.
Recently, deep neural networks have been found to nearly interpolate training data but still generalize well in various applications. To help understand such a phenomenon, it has been of interest to analyze the ridge estimator and its interpolation limit in high-dimensional regression models. For this motivation, we study the ridge estimator in a rotationally sparse setting of high-dimensional linear regression, where the signal of a response is aligned with a small number, $d$, of covariates with large or spiked variances, compared with the remaining covariates with small or tail variances, \textit{after} an orthogonal transformation of the covariate vector. We establish high-probability upper and lower bounds on the out-sample and in-sample prediction errors in two distinct regimes depending on the ratio of the effective rank of tail variances over the sample size $n$. The separation of the two regimes enables us to exploit relevant concentration inequalities and derive concrete error bounds without making any oracle assumption or independent components assumption on covariate vectors. Moreover, we derive sufficient and necessary conditions which indicate that the prediction errors of ridge estimation can be of the order $O(\frac{d}{n})$ if and only if the gap between the spiked and tail variances are sufficiently large. We also compare the orders of optimal out-sample and in-sample prediction errors and find that, remarkably, the optimal out-sample prediction error may be significantly smaller than the optimal in-sample one. Finally, we present numerical experiments which empirically confirm our theoretical findings.
Social media abounds with multimodal sarcasm, and identifying sarcasm targets is particularly challenging due to the implicit incongruity not directly evident in the text and image modalities. Current methods for Multimodal Sarcasm Target Identification (MSTI) predominantly focus on superficial indicators in an end-to-end manner, overlooking the nuanced understanding of multimodal sarcasm conveyed through both the text and image. This paper proposes a versatile MSTI framework with a coarse-to-fine paradigm, by augmenting sarcasm explainability with reasoning and pre-training knowledge. Inspired by the powerful capacity of Large Multimodal Models (LMMs) on multimodal reasoning, we first engage LMMs to generate competing rationales for coarser-grained pre-training of a small language model on multimodal sarcasm detection. We then propose fine-tuning the model for finer-grained sarcasm target identification. Our framework is thus empowered to adeptly unveil the intricate targets within multimodal sarcasm and mitigate the negative impact posed by potential noise inherently in LMMs. Experimental results demonstrate that our model far outperforms state-of-the-art MSTI methods, and markedly exhibits explainability in deciphering sarcasm as well.
We are interested in understanding whether retrieval-based localization approaches are good enough in the context of self-driving vehicles. Towards this goal, we introduce Pit30M, a new image and LiDAR dataset with over 30 million frames, which is 10 to 100 times larger than those used in previous work. Pit30M is captured under diverse conditions (i.e., season, weather, time of the day, traffic), and provides accurate localization ground truth. We also automatically annotate our dataset with historical weather and astronomical data, as well as with image and LiDAR semantic segmentation as a proxy measure for occlusion. We benchmark multiple existing methods for image and LiDAR retrieval and, in the process, introduce a simple, yet effective convolutional network-based LiDAR retrieval method that is competitive with the state of the art. Our work provides, for the first time, a benchmark for sub-metre retrieval-based localization at city scale. The dataset, its Python SDK, as well as more information about the sensors, calibration, and metadata, are available on the project website: //pit30m.github.io/
With the expansion of the scale of robotics applications, the multi-goal multi-agent pathfinding (MG-MAPF) problem began to gain widespread attention. This problem requires each agent to visit pre-assigned multiple goal points at least once without conflict. Some previous methods have been proposed to solve the MG-MAPF problem based on Decoupling the goal Vertex visiting order search and the Single-agent pathfinding (DVS). However, this paper demonstrates that the methods based on DVS cannot always obtain the optimal solution. To obtain the optimal result, we propose the Multi-Goal Conflict-Based Search (MGCBS), which is based on Decoupling the goal Safe interval visiting order search and the Single-agent pathfinding (DSS). Additionally, we present the Time-Interval-Space Forest (TIS Forest) to enhance the efficiency of MGCBS by maintaining the shortest paths from any start point at any start time step to each safe interval at the goal points. The experiment demonstrates that our method can consistently obtain optimal results and execute up to 7 times faster than the state-of-the-art method in our evaluation.
Understanding causality helps to structure interventions to achieve specific goals and enables predictions under interventions. With the growing importance of learning causal relationships, causal discovery tasks have transitioned from using traditional methods to infer potential causal structures from observational data to the field of pattern recognition involved in deep learning. The rapid accumulation of massive data promotes the emergence of causal search methods with brilliant scalability. Existing summaries of causal discovery methods mainly focus on traditional methods based on constraints, scores and FCMs, there is a lack of perfect sorting and elaboration for deep learning-based methods, also lacking some considers and exploration of causal discovery methods from the perspective of variable paradigms. Therefore, we divide the possible causal discovery tasks into three types according to the variable paradigm and give the definitions of the three tasks respectively, define and instantiate the relevant datasets for each task and the final causal model constructed at the same time, then reviews the main existing causal discovery methods for different tasks. Finally, we propose some roadmaps from different perspectives for the current research gaps in the field of causal discovery and point out future research directions.
Inspired by the human cognitive system, attention is a mechanism that imitates the human cognitive awareness about specific information, amplifying critical details to focus more on the essential aspects of data. Deep learning has employed attention to boost performance for many applications. Interestingly, the same attention design can suit processing different data modalities and can easily be incorporated into large networks. Furthermore, multiple complementary attention mechanisms can be incorporated in one network. Hence, attention techniques have become extremely attractive. However, the literature lacks a comprehensive survey specific to attention techniques to guide researchers in employing attention in their deep models. Note that, besides being demanding in terms of training data and computational resources, transformers only cover a single category in self-attention out of the many categories available. We fill this gap and provide an in-depth survey of 50 attention techniques categorizing them by their most prominent features. We initiate our discussion by introducing the fundamental concepts behind the success of attention mechanism. Next, we furnish some essentials such as the strengths and limitations of each attention category, describe their fundamental building blocks, basic formulations with primary usage, and applications specifically for computer vision. We also discuss the challenges and open questions related to attention mechanism in general. Finally, we recommend possible future research directions for deep attention.
Knowledge enhanced pre-trained language models (K-PLMs) are shown to be effective for many public tasks in the literature but few of them have been successfully applied in practice. To address this problem, we propose K-AID, a systematic approach that includes a low-cost knowledge acquisition process for acquiring domain knowledge, an effective knowledge infusion module for improving model performance, and a knowledge distillation component for reducing the model size and deploying K-PLMs on resource-restricted devices (e.g., CPU) for real-world application. Importantly, instead of capturing entity knowledge like the majority of existing K-PLMs, our approach captures relational knowledge, which contributes to better-improving sentence-level text classification and text matching tasks that play a key role in question answering (QA). We conducted a set of experiments on five text classification tasks and three text matching tasks from three domains, namely E-commerce, Government, and Film&TV, and performed online A/B tests in E-commerce. Experimental results show that our approach is able to achieve substantial improvement on sentence-level question answering tasks and bring beneficial business value in industrial settings.
Many tasks in natural language processing can be viewed as multi-label classification problems. However, most of the existing models are trained with the standard cross-entropy loss function and use a fixed prediction policy (e.g., a threshold of 0.5) for all the labels, which completely ignores the complexity and dependencies among different labels. In this paper, we propose a meta-learning method to capture these complex label dependencies. More specifically, our method utilizes a meta-learner to jointly learn the training policies and prediction policies for different labels. The training policies are then used to train the classifier with the cross-entropy loss function, and the prediction policies are further implemented for prediction. Experimental results on fine-grained entity typing and text classification demonstrate that our proposed method can obtain more accurate multi-label classification results.
Object detection typically assumes that training and test data are drawn from an identical distribution, which, however, does not always hold in practice. Such a distribution mismatch will lead to a significant performance drop. In this work, we aim to improve the cross-domain robustness of object detection. We tackle the domain shift on two levels: 1) the image-level shift, such as image style, illumination, etc, and 2) the instance-level shift, such as object appearance, size, etc. We build our approach based on the recent state-of-the-art Faster R-CNN model, and design two domain adaptation components, on image level and instance level, to reduce the domain discrepancy. The two domain adaptation components are based on H-divergence theory, and are implemented by learning a domain classifier in adversarial training manner. The domain classifiers on different levels are further reinforced with a consistency regularization to learn a domain-invariant region proposal network (RPN) in the Faster R-CNN model. We evaluate our newly proposed approach using multiple datasets including Cityscapes, KITTI, SIM10K, etc. The results demonstrate the effectiveness of our proposed approach for robust object detection in various domain shift scenarios.
Many natural language processing tasks solely rely on sparse dependencies between a few tokens in a sentence. Soft attention mechanisms show promising performance in modeling local/global dependencies by soft probabilities between every two tokens, but they are not effective and efficient when applied to long sentences. By contrast, hard attention mechanisms directly select a subset of tokens but are difficult and inefficient to train due to their combinatorial nature. In this paper, we integrate both soft and hard attention into one context fusion model, "reinforced self-attention (ReSA)", for the mutual benefit of each other. In ReSA, a hard attention trims a sequence for a soft self-attention to process, while the soft attention feeds reward signals back to facilitate the training of the hard one. For this purpose, we develop a novel hard attention called "reinforced sequence sampling (RSS)", selecting tokens in parallel and trained via policy gradient. Using two RSS modules, ReSA efficiently extracts the sparse dependencies between each pair of selected tokens. We finally propose an RNN/CNN-free sentence-encoding model, "reinforced self-attention network (ReSAN)", solely based on ReSA. It achieves state-of-the-art performance on both Stanford Natural Language Inference (SNLI) and Sentences Involving Compositional Knowledge (SICK) datasets.