Segmentation of objects in microscopy images is required for many biomedical applications. We introduce object-centric embeddings (OCEs), which embed image patches such that the spatial offsets between patches cropped from the same object are preserved. Those learnt embeddings can be used to delineate individual objects and thus obtain instance segmentations. Here, we show theoretically that, under assumptions commonly found in microscopy images, OCEs can be learnt through a self-supervised task that predicts the spatial offset between image patches. Together, this forms an unsupervised cell instance segmentation method which we evaluate on nine diverse large-scale microscopy datasets. Segmentations obtained with our method lead to substantially improved results, compared to state-of-the-art baselines on six out of nine datasets, and perform on par on the remaining three datasets. If ground-truth annotations are available, our method serves as an excellent starting point for supervised training, reducing the required amount of ground-truth needed by one order of magnitude, thus substantially increasing the practical applicability of our method. Source code is available at //github.com/funkelab/cellulus.
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We propose to extract meaning representations from autoregressive language models by considering the distribution of all possible trajectories extending an input text. This strategy is prompt-free, does not require fine-tuning, and is applicable to any pre-trained autoregressive model. Moreover, unlike vector-based representations, distribution-based representations can also model asymmetric relations (e.g., direction of logical entailment, hypernym/hyponym relations) by using algebraic operations between likelihood functions. These ideas are grounded in distributional perspectives on semantics and are connected to standard constructions in automata theory, but to our knowledge they have not been applied to modern language models. We empirically show that the representations obtained from large models align well with human annotations, outperform other zero-shot and prompt-free methods on semantic similarity tasks, and can be used to solve more complex entailment and containment tasks that standard embeddings cannot handle. Finally, we extend our method to represent data from different modalities (e.g., image and text) using multimodal autoregressive models. Our code is available at: //github.com/tianyu139/meaning-as-trajectories
Conventional centralised deep learning paradigms are not feasible when data from different sources cannot be shared due to data privacy or transmission limitation. To resolve this problem, federated learning has been introduced to transfer knowledge across multiple sources (clients) with non-shared data while optimising a globally generalised central model (server). Existing federated learning paradigms mostly focus on transferring holistic high-level knowledge (such as class) across models, which are closely related to specific objects of interest so may suffer from inverse attack. In contrast, in this work, we consider transferring mid-level semantic knowledge (such as attribute) which is not sensitive to specific objects of interest and therefore is more privacy-preserving and scalable. To this end, we formulate a new Federated Zero-Shot Learning (FZSL) paradigm to learn mid-level semantic knowledge at multiple local clients with non-shared local data and cumulatively aggregate a globally generalised central model for deployment. To improve model discriminative ability, we propose to explore semantic knowledge augmentation from external knowledge for enriching the mid-level semantic space in FZSL. Extensive experiments on five zeroshot learning benchmark datasets validate the effectiveness of our approach for optimising a generalisable federated learning model with mid-level semantic knowledge transfer.
Recent advances in imaging and high-performance computing have made it possible to image the entire human brain at the cellular level. This is the basis to study the multi-scale architecture of the brain regarding its subdivision into brain areas and nuclei, cortical layers, columns, and cell clusters down to single cell morphology Methods for brain mapping and cell segmentation exploit such images to enable rapid and automated analysis of cytoarchitecture and cell distribution in complete series of histological sections. However, the presence of inevitable processing artifacts in the image data caused by missing sections, tears in the tissue, or staining variations remains the primary reason for gaps in the resulting image data. To this end we aim to provide a model that can fill in missing information in a reliable way, following the true cell distribution at different scales. Inspired by the recent success in image generation, we propose a denoising diffusion probabilistic model (DDPM), trained on light-microscopic scans of cell-body stained sections. We extend this model with the RePaint method to impute missing or replace corrupted image data. We show that our trained DDPM is able to generate highly realistic image information for this purpose, generating plausible cell statistics and cytoarchitectonic patterns. We validate its outputs using two established downstream task models trained on the same data.
Moving object segmentation (MOS) in dynamic scenes is challenging for autonomous driving, especially for sequences obtained from moving ego vehicles. Most state-of-the-art methods leverage motion cues obtained from optical flow maps. However, since these methods are often based on optical flows that are pre-computed from successive RGB frames, this neglects the temporal consideration of events occurring within inter-frame and limits the practicality of these methods in real-life situations. To address these limitations, we propose to exploit event cameras for better video understanding, which provide rich motion cues without relying on optical flow. To foster research in this area, we first introduce a novel large-scale dataset called DSEC-MOS for moving object segmentation from moving ego vehicles. Subsequently, we devise EmoFormer, a novel network able to exploit the event data. For this purpose, we fuse the event prior with spatial semantic maps to distinguish moving objects from the static background, adding another level of dense supervision around our object of interest - moving ones. Our proposed network relies only on event data for training but does not require event input during inference, making it directly comparable to frame-only methods in terms of efficiency and more widely usable in many application cases. An exhaustive comparison with 8 state-of-the-art video object segmentation methods highlights a significant performance improvement of our method over all other methods. Project Page: //github.com/ZZY-Zhou/DSEC-MOS.
Learnable embedding vector is one of the most important applications in machine learning, and is widely used in various database-related domains. However, the high dimensionality of sparse data in recommendation tasks and the huge volume of corpus in retrieval-related tasks lead to a large memory consumption of the embedding table, which poses a great challenge to the training and deployment of models. Recent research has proposed various methods to compress the embeddings at the cost of a slight decrease in model quality or the introduction of other overheads. Nevertheless, the relative performance of these methods remains unclear. Existing experimental comparisons only cover a subset of these methods and focus on limited metrics. In this paper, we perform a comprehensive comparative analysis and experimental evaluation of embedding compression. We introduce a new taxonomy that categorizes these techniques based on their characteristics and methodologies, and further develop a modular benchmarking framework that integrates 14 representative methods. Under a uniform test environment, our benchmark fairly evaluates each approach, presents their strengths and weaknesses under different memory budgets, and recommends the best method based on the use case. In addition to providing useful guidelines, our study also uncovers the limitations of current methods and suggests potential directions for future research.
An initial procedure in text-as-data applications is text preprocessing. One of the typical steps, which can substantially facilitate computations, consists in removing infrequent words believed to provide limited information about the corpus. Despite popularity of vocabulary pruning, not many guidelines on how to implement it are available in the literature. The aim of the paper is to fill this gap by examining the effects of removing infrequent words for the quality of topics estimated using Latent Dirichlet Allocation. The analysis is based on Monte Carlo experiments taking into account different criteria for infrequent terms removal and various evaluation metrics. The results indicate that pruning is beneficial and that the share of vocabulary which might be eliminated can be quite considerable.
Interactive segmentation is a crucial research area in medical image analysis aiming to boost the efficiency of costly annotations by incorporating human feedback. This feedback takes the form of clicks, scribbles, or masks and allows for iterative refinement of the model output so as to efficiently guide the system towards the desired behavior. In recent years, deep learning-based approaches have propelled results to a new level causing a rapid growth in the field with 121 methods proposed in the medical imaging domain alone. In this review, we provide a structured overview of this emerging field featuring a comprehensive taxonomy, a systematic review of existing methods, and an in-depth analysis of current practices. Based on these contributions, we discuss the challenges and opportunities in the field. For instance, we find that there is a severe lack of comparison across methods which needs to be tackled by standardized baselines and benchmarks.
The emerging mission-critical Internet of Things (IoT) play a vital role in remote healthcare, haptic interaction, and industrial automation, where timely delivery of status updates is crucial. The Age of Information (AoI) is an effective metric to capture and evaluate information freshness at the destination. A system design based solely on the optimization of the average AoI might not be adequate to capture the requirements of mission-critical applications, since averaging eliminates the effects of extreme events. In this paper, we introduce a Deep Reinforcement Learning (DRL)-based algorithm to improve AoI in mission-critical IoT applications. The objective is to minimize an AoI-based metric consisting of the weighted sum of the average AoI and the probability of exceeding an AoI threshold. We utilize the actor-critic method to train the algorithm to achieve optimized scheduling policy to solve the formulated problem. The performance of our proposed method is evaluated in a simulated setup and the results show a significant improvement in terms of the average AoI and the AoI violation probability compared to the related-work.
In pace with developments in the research field of artificial intelligence, knowledge graphs (KGs) have attracted a surge of interest from both academia and industry. As a representation of semantic relations between entities, KGs have proven to be particularly relevant for natural language processing (NLP), experiencing a rapid spread and wide adoption within recent years. Given the increasing amount of research work in this area, several KG-related approaches have been surveyed in the NLP research community. However, a comprehensive study that categorizes established topics and reviews the maturity of individual research streams remains absent to this day. Contributing to closing this gap, we systematically analyzed 507 papers from the literature on KGs in NLP. Our survey encompasses a multifaceted review of tasks, research types, and contributions. As a result, we present a structured overview of the research landscape, provide a taxonomy of tasks, summarize our findings, and highlight directions for future work.
Object detection is a fundamental task in computer vision and image processing. Current deep learning based object detectors have been highly successful with abundant labeled data. But in real life, it is not guaranteed that each object category has enough labeled samples for training. These large object detectors are easy to overfit when the training data is limited. Therefore, it is necessary to introduce few-shot learning and zero-shot learning into object detection, which can be named low-shot object detection together. Low-Shot Object Detection (LSOD) aims to detect objects from a few or even zero labeled data, which can be categorized into few-shot object detection (FSOD) and zero-shot object detection (ZSD), respectively. This paper conducts a comprehensive survey for deep learning based FSOD and ZSD. First, this survey classifies methods for FSOD and ZSD into different categories and discusses the pros and cons of them. Second, this survey reviews dataset settings and evaluation metrics for FSOD and ZSD, then analyzes the performance of different methods on these benchmarks. Finally, this survey discusses future challenges and promising directions for FSOD and ZSD.
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