我们将WS-DINO作为一种新型框架，以从细胞的高内感荧光图像学习表型表示中使用弱标记信息。我们的模型基于具有视觉变压器骨干（Dino）的知识蒸馏方法，我们将其用作研究的基准模型。使用WS-DINO，我们对高含量显微镜屏幕（处理和化合物）中可用的弱标签信息进行了微调，并在BBBC021数据集的非同样化合物的动作预测中实现了最先进的性能（98％），并使用该化合物作为弱标签，而非类型的化合物和批处理性能（96％）。我们的方法绕过单细胞种植作为预处理步骤，并使用自发图表表明该模型学习结构上有意义的表型曲线。

Recent advances in upper limb prostheses have led to significant improvements in the number of movements provided by the robotic limb. However, the method for controlling multiple degrees of freedom via user-generated signals remains challenging. To address this issue, various machine learning controllers have been developed to better predict movement intent. As these controllers become more intelligent and take on more autonomy in the system, the traditional approach of representing the human-machine interface as a human controlling a tool becomes limiting. One possible approach to improve the understanding of these interfaces is to model them as collaborative, multi-agent systems through the lens of joint action. The field of joint action has been commonly applied to two human partners who are trying to work jointly together to achieve a task, such as singing or moving a table together, by effecting coordinated change in their shared environment. In this work, we compare different prosthesis controllers (proportional electromyography with sequential switching, pattern recognition, and adaptive switching) in terms of how they present the hallmarks of joint action. The results of the comparison lead to a new perspective for understanding how existing myoelectric systems relate to each other, along with recommendations for how to improve these systems by increasing the collaborative communication between each partner.

Late-life depression (LLD) is a highly prevalent mood disorder occurring in older adults and is frequently accompanied by cognitive impairment (CI). Studies have shown that LLD may increase the risk of Alzheimer's disease (AD). However, the heterogeneity of presentation of geriatric depression suggests that multiple biological mechanisms may underlie it. Current biological research on LLD progression incorporates machine learning that combines neuroimaging data with clinical observations. There are few studies on incident cognitive diagnostic outcomes in LLD based on structural MRI (sMRI). In this paper, we describe the development of a hybrid representation learning (HRL) framework for predicting cognitive diagnosis over 5 years based on T1-weighted sMRI data. Specifically, we first extract prediction-oriented MRI features via a deep neural network, and then integrate them with handcrafted MRI features via a Transformer encoder for cognitive diagnosis prediction. Two tasks are investigated in this work, including (1) identifying cognitively normal subjects with LLD and never-depressed older healthy subjects, and (2) identifying LLD subjects who developed CI (or even AD) and those who stayed cognitively normal over five years. To the best of our knowledge, this is among the first attempts to study the complex heterogeneous progression of LLD based on task-oriented and handcrafted MRI features. We validate the proposed HRL on 294 subjects with T1-weighted MRIs from two clinically harmonized studies. Experimental results suggest that the HRL outperforms several classical machine learning and state-of-the-art deep learning methods in LLD identification and prediction tasks.

Heart failure remains a major public health challenge with growing costs. Ejection fraction (EF) is a key metric for the diagnosis and management of heart failure however estimation of EF using echocardiography remains expensive for the healthcare system and subject to intra/inter operator variability. While chest x-rays (CXR) are quick, inexpensive, and require less expertise, they do not provide sufficient information to the human eye to estimate EF. This work explores the efficacy of computer vision techniques to predict reduced EF solely from CXRs. We studied a dataset of 3488 CXRs from the MIMIC CXR-jpg (MCR) dataset. Our work establishes benchmarks using multiple state-of-the-art convolutional neural network architectures. The subsequent analysis shows increasing model sizes from 8M to 23M parameters improved classification performance without overfitting the dataset. We further show how data augmentation techniques such as CXR rotation and random cropping further improves model performance another ~5%. Finally, we conduct an error analysis using saliency maps and Grad-CAMs to better understand the failure modes of convolutional models on this task.

Training of neural networks is a computationally intensive task. The significance of understanding and modeling the training dynamics is growing as increasingly larger networks are being trained. We propose in this work a model based on the correlation of the parameters' dynamics, which dramatically reduces the dimensionality. We refer to our algorithm as \emph{correlation mode decomposition} (CMD). It splits the parameter space into groups of parameters (modes) which behave in a highly correlated manner through the epochs. We achieve a remarkable dimensionality reduction with this approach, where networks like ResNet-18, transformers and GANs, containing millions of parameters, can be modeled well using just a few modes. We observe each typical time profile of a mode is spread throughout the network in all layers. Moreover, our model induces regularization which yields better generalization capacity on the test set. This representation enhances the understanding of the underlying training dynamics and can pave the way for designing better acceleration techniques.

Targeted syntactic evaluations of language models ask whether models show stable preferences for syntactically acceptable content over minimal-pair unacceptable inputs. Most targeted syntactic evaluation datasets ask models to make these judgements with just a single context-free sentence as input. This does not match language models' training regime, in which input sentences are always highly contextualized by the surrounding corpus. This mismatch raises an important question: how robust are models' syntactic judgements in different contexts? In this paper, we investigate the stability of language models' performance on targeted syntactic evaluations as we vary properties of the input context: the length of the context, the types of syntactic phenomena it contains, and whether or not there are violations of grammaticality. We find that model judgements are generally robust when placed in randomly sampled linguistic contexts. However, they are substantially unstable for contexts containing syntactic structures matching those in the critical test content. Among all tested models (GPT-2 and five variants of OPT), we significantly improve models' judgements by providing contexts with matching syntactic structures, and conversely significantly worsen them using unacceptable contexts with matching but violated syntactic structures. This effect is amplified by the length of the context, except for unrelated inputs. We show that these changes in model performance are not explainable by simple features matching the context and the test inputs, such as lexical overlap and dependency overlap. This sensitivity to highly specific syntactic features of the context can only be explained by the models' implicit in-context learning abilities.

The number of international benchmarking competitions is steadily increasing in various fields of machine learning (ML) research and practice. So far, however, little is known about the common practice as well as bottlenecks faced by the community in tackling the research questions posed. To shed light on the status quo of algorithm development in the specific field of biomedical imaging analysis, we designed an international survey that was issued to all participants of challenges conducted in conjunction with the IEEE ISBI 2021 and MICCAI 2021 conferences (80 competitions in total). The survey covered participants' expertise and working environments, their chosen strategies, as well as algorithm characteristics. A median of 72% challenge participants took part in the survey. According to our results, knowledge exchange was the primary incentive (70%) for participation, while the reception of prize money played only a minor role (16%). While a median of 80 working hours was spent on method development, a large portion of participants stated that they did not have enough time for method development (32%). 25% perceived the infrastructure to be a bottleneck. Overall, 94% of all solutions were deep learning-based. Of these, 84% were based on standard architectures. 43% of the respondents reported that the data samples (e.g., images) were too large to be processed at once. This was most commonly addressed by patch-based training (69%), downsampling (37%), and solving 3D analysis tasks as a series of 2D tasks. K-fold cross-validation on the training set was performed by only 37% of the participants and only 50% of the participants performed ensembling based on multiple identical models (61%) or heterogeneous models (39%). 48% of the respondents applied postprocessing steps.

In the last years, there has been a great interest in machine-learning-based heuristics for solving NP-hard combinatorial optimization problems. The developed methods have shown potential on many optimization problems. In this paper, we present a learned heuristic for the reoptimization of a problem after a minor change in its data. We focus on the case of the capacited vehicle routing problem with static clients (i.e., same client locations) and changed demands. Given the edges of an original solution, the goal is to predict and fix the ones that have a high chance of remaining in an optimal solution after a change of client demands. This partial prediction of the solution reduces the complexity of the problem and speeds up its resolution, while yielding a good quality solution. The proposed approach resulted in solutions with an optimality gap ranging from 0\% to 1.7\% on different benchmark instances within a reasonable computing time.

Human operators in human-robot teams are commonly perceived to be critical for mission success. To explore the direct and perceived impact of operator input on task success and team performance, 16 real-world missions (10 hrs) were conducted based on the DARPA Subterranean Challenge. These missions were to deploy a heterogeneous team of robots for a search task to locate and identify artifacts such as climbing rope, drills and mannequins representing human survivors. Two conditions were evaluated: human operators that could control the robot team with state-of-the-art autonomy (Human-Robot Team) compared to autonomous missions without human operator input (Robot-Autonomy). Human-Robot Teams were often in directed autonomy mode (70% of mission time), found more items, traversed more distance, covered more unique ground, and had a higher time between safety-related events. Human-Robot Teams were faster at finding the first artifact, but slower to respond to information from the robot team. In routine conditions, scores were comparable for artifacts, distance, and coverage. Reasons for intervention included creating waypoints to prioritise high-yield areas, and to navigate through error-prone spaces. After observing robot autonomy, operators reported increases in robot competency and trust, but that robot behaviour was not always transparent and understandable, even after high mission performance.

In this short paper, we present our ongoing work on the veriFIRE project -- a collaboration between industry and academia, aimed at using verification for increasing the reliability of a real-world, safety-critical system. The system we target is an airborne platform for wildfire detection, which incorporates two deep neural networks. We describe the system and its properties of interest, and discuss our attempts to verify the system's consistency, i.e., its ability to continue and correctly classify a given input, even if the wildfire it describes increases in intensity. We regard this work as a step towards the incorporation of academic-oriented verification tools into real-world systems of interest.