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The field of computational pathology has witnessed remarkable progress in the development of both task-specific predictive models and task-agnostic self-supervised vision encoders. However, despite the explosive growth of generative artificial intelligence (AI), there has been limited study on building general purpose, multimodal AI assistants tailored to pathology. Here we present PathChat, a vision-language generalist AI assistant for human pathology using an in-house developed foundational vision encoder pretrained on 100 million histology images from over 100,000 patient cases and 1.18 million pathology image-caption pairs. The vision encoder is then combined with a pretrained large language model and the whole system is finetuned on over 250,000 diverse disease agnostic visual language instructions. We compare PathChat against several multimodal vision language AI assistants as well as GPT4V, which powers the commercially available multimodal general purpose AI assistant ChatGPT-4. When relevant clinical context is provided with the histology image, PathChat achieved a diagnostic accuracy of 87% on multiple-choice questions based on publicly available cases of diverse tissue origins and disease models. Additionally, using open-ended questions and human expert evaluation, we found that overall PathChat produced more accurate and pathologist-preferable responses to diverse queries related to pathology. As an interactive and general vision language AI assistant that can flexibly handle both visual and natural language inputs, PathChat can potentially find impactful applications in pathology education, research, and human-in-the-loop clinical decision making.

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Recently, an interesting phenomenon called grokking has gained much attention, where generalization occurs long after the models have initially overfitted the training data. We try to understand this seemingly strange phenomenon through the robustness of the neural network. From a robustness perspective, we show that the popular $l_2$ weight norm (metric) of the neural network is actually a sufficient condition for grokking. Based on the previous observations, we propose perturbation-based methods to speed up the generalization process. In addition, we examine the standard training process on the modulo addition dataset and find that it hardly learns other basic group operations before grokking, for example, the commutative law. Interestingly, the speed-up of generalization when using our proposed method can be explained by learning the commutative law, a necessary condition when the model groks on the test dataset. We also empirically find that $l_2$ norm correlates with grokking on the test data not in a timely way, we propose new metrics based on robustness and information theory and find that our new metrics correlate well with the grokking phenomenon and may be used to predict grokking.

Modeling the correlations among errors is closely associated with how accurately the model can quantify predictive uncertainty in probabilistic time series forecasting. Recent multivariate models have made significant progress in accounting for contemporaneous correlations among errors, while a common assumption on these errors is that they are temporally independent for the sake of statistical simplicity. However, real-world observations often deviate from this assumption, since errors usually exhibit substantial autocorrelation due to various factors such as the exclusion of temporally correlated covariates. In this work, we propose an efficient method, based on a low-rank-plus-diagonal parameterization of the covariance matrix, which can effectively characterize the autocorrelation of errors. The proposed method possesses several desirable properties: the complexity does not scale with the number of time series, the resulting covariance can be used for calibrating predictions, and it can seamlessly integrate with any model with Gaussian-distributed errors. We empirically demonstrate these properties using two distinct neural forecasting models -- GPVar and Transformer. Our experimental results confirm the effectiveness of our method in enhancing predictive accuracy and the quality of uncertainty quantification on multiple real-world datasets.

We investigate the problem of jointly testing multiple hypotheses and estimating a random parameter of the underlying distribution in a sequential setup. The aim is to jointly infer the true hypothesis and the true parameter while using on average as few samples as possible and keeping the detection and estimation errors below predefined levels. Based on mild assumptions on the underlying model, we propose an asymptotically optimal procedure, i.e., a procedure that becomes optimal when the tolerated detection and estimation error levels tend to zero. The implementation of the resulting asymptotically optimal stopping rule is computationally cheap and, hence, applicable for high-dimensional data. We further propose a projected quasi-Newton method to optimally choose the coefficients that parameterize the instantaneous cost function such that the constraints are fulfilled with equality. The proposed theory is validated by numerical examples.

Locality-sensitive hashing (LSH) is a fundamental algorithmic technique widely employed in large-scale data processing applications, such as nearest-neighbor search, entity resolution, and clustering. However, its applicability in some real-world scenarios is limited due to the need for careful design of hashing functions that align with specific metrics. Existing LSH-based Entity Blocking solutions primarily rely on generic similarity metrics such as Jaccard similarity, whereas practical use cases often demand complex and customized similarity rules surpassing the capabilities of generic similarity metrics. Consequently, designing LSH functions for these customized similarity rules presents considerable challenges. In this research, we propose a neuralization approach to enhance locality-sensitive hashing by training deep neural networks to serve as hashing functions for complex metrics. We assess the effectiveness of this approach within the context of the entity resolution problem, which frequently involves the use of task-specific metrics in real-world applications. Specifically, we introduce NLSHBlock (Neural-LSH Block), a novel blocking methodology that leverages pre-trained language models, fine-tuned with a novel LSH-based loss function. Through extensive evaluations conducted on a diverse range of real-world datasets, we demonstrate the superiority of NLSHBlock over existing methods, exhibiting significant performance improvements. Furthermore, we showcase the efficacy of NLSHBlock in enhancing the performance of the entity matching phase, particularly within the semi-supervised setting.

This paper considers the filtering problem which consists in reconstructing the state of a dynamical system with partial observations coming from sensor measurements, and the knowledge that the dynamics are governed by a physical PDE model with unknown parameters. We present a filtering algorithm where the reconstruction of the dynamics is done with neural network approximations whose weights are dynamically updated using observational data. In addition to the estimate of the state, we also obtain time-dependent parameter estimations of the PDE parameters governing the observed evolution. We illustrate the behavior of the method in a one-dimensional KdV equation involving the transport of solutions with local support. Our numerical investigation reveals the importance of the location and number of the observations. In particular, it suggests to consider dynamical sensor placement.

Humans perceive the world by concurrently processing and fusing high-dimensional inputs from multiple modalities such as vision and audio. Machine perception models, in stark contrast, are typically modality-specific and optimised for unimodal benchmarks, and hence late-stage fusion of final representations or predictions from each modality (`late-fusion') is still a dominant paradigm for multimodal video classification. Instead, we introduce a novel transformer based architecture that uses `fusion bottlenecks' for modality fusion at multiple layers. Compared to traditional pairwise self-attention, our model forces information between different modalities to pass through a small number of bottleneck latents, requiring the model to collate and condense the most relevant information in each modality and only share what is necessary. We find that such a strategy improves fusion performance, at the same time reducing computational cost. We conduct thorough ablation studies, and achieve state-of-the-art results on multiple audio-visual classification benchmarks including Audioset, Epic-Kitchens and VGGSound. All code and models will be released.

Recent contrastive representation learning methods rely on estimating mutual information (MI) between multiple views of an underlying context. E.g., we can derive multiple views of a given image by applying data augmentation, or we can split a sequence into views comprising the past and future of some step in the sequence. Contrastive lower bounds on MI are easy to optimize, but have a strong underestimation bias when estimating large amounts of MI. We propose decomposing the full MI estimation problem into a sum of smaller estimation problems by splitting one of the views into progressively more informed subviews and by applying the chain rule on MI between the decomposed views. This expression contains a sum of unconditional and conditional MI terms, each measuring modest chunks of the total MI, which facilitates approximation via contrastive bounds. To maximize the sum, we formulate a contrastive lower bound on the conditional MI which can be approximated efficiently. We refer to our general approach as Decomposed Estimation of Mutual Information (DEMI). We show that DEMI can capture a larger amount of MI than standard non-decomposed contrastive bounds in a synthetic setting, and learns better representations in a vision domain and for dialogue generation.

Graph neural networks (GNNs) are a popular class of machine learning models whose major advantage is their ability to incorporate a sparse and discrete dependency structure between data points. Unfortunately, GNNs can only be used when such a graph-structure is available. In practice, however, real-world graphs are often noisy and incomplete or might not be available at all. With this work, we propose to jointly learn the graph structure and the parameters of graph convolutional networks (GCNs) by approximately solving a bilevel program that learns a discrete probability distribution on the edges of the graph. This allows one to apply GCNs not only in scenarios where the given graph is incomplete or corrupted but also in those where a graph is not available. We conduct a series of experiments that analyze the behavior of the proposed method and demonstrate that it outperforms related methods by a significant margin.

We advocate the use of implicit fields for learning generative models of shapes and introduce an implicit field decoder for shape generation, aimed at improving the visual quality of the generated shapes. An implicit field assigns a value to each point in 3D space, so that a shape can be extracted as an iso-surface. Our implicit field decoder is trained to perform this assignment by means of a binary classifier. Specifically, it takes a point coordinate, along with a feature vector encoding a shape, and outputs a value which indicates whether the point is outside the shape or not. By replacing conventional decoders by our decoder for representation learning and generative modeling of shapes, we demonstrate superior results for tasks such as shape autoencoding, generation, interpolation, and single-view 3D reconstruction, particularly in terms of visual quality.

The dominant sequence transduction models are based on complex recurrent or convolutional neural networks in an encoder-decoder configuration. The best performing models also connect the encoder and decoder through an attention mechanism. We propose a new simple network architecture, the Transformer, based solely on attention mechanisms, dispensing with recurrence and convolutions entirely. Experiments on two machine translation tasks show these models to be superior in quality while being more parallelizable and requiring significantly less time to train. Our model achieves 28.4 BLEU on the WMT 2014 English-to-German translation task, improving over the existing best results, including ensembles by over 2 BLEU. On the WMT 2014 English-to-French translation task, our model establishes a new single-model state-of-the-art BLEU score of 41.8 after training for 3.5 days on eight GPUs, a small fraction of the training costs of the best models from the literature. We show that the Transformer generalizes well to other tasks by applying it successfully to English constituency parsing both with large and limited training data.

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