Computational pathology uses artificial intelligence to enable precision medicine and decision support systems through the analysis of whole slide images. It has the potential to revolutionize the diagnosis and treatment of cancer. However, a major challenge to this objective is that for many specific computational pathology tasks the amount of data is inadequate for development. To address this challenge, we created Virchow, a 632 million parameter deep neural network foundation model for computational pathology. Using self-supervised learning, Virchow is trained on 1.5 million hematoxylin and eosin stained whole slide images from diverse tissue groups, which is orders of magnitude more data than previous works. When evaluated on downstream tasks including tile-level pan-cancer detection and subtyping and slide-level biomarker prediction, Virchow outperforms state-of-the-art systems both on internal datasets drawn from the same population as the pretraining data as well as external public datasets. Virchow achieves 93% balanced accuracy for pancancer tile classification, and AUCs of 0.983 for colon microsatellite instability status prediction and 0.967 for breast CDH1 status prediction. The gains in performance highlight the importance of pretraining on massive pathology image datasets, suggesting pretraining on even larger datasets could continue improving performance for many high-impact applications where limited amounts of training data are available, such as drug outcome prediction.
相關內容
Physics-informed neural networks (PINNs) have gained prominence for their capability to tackle supervised learning tasks that conform to physical laws, notably nonlinear partial differential equations (PDEs). This paper presents "PINNs-TF2", a Python package built on the TensorFlow V2 framework. It not only accelerates PINNs implementation but also simplifies user interactions by abstracting complex PDE challenges. We underscore the pivotal role of compilers in PINNs, highlighting their ability to boost performance by up to 119x. Across eight diverse examples, our package, integrated with XLA compilers, demonstrated its flexibility and achieved an average speed-up of 18.12 times over TensorFlow V1. Moreover, a real-world case study is implemented to underscore the compilers' potential to handle many trainable parameters and large batch sizes. For community engagement and future enhancements, our package's source code is openly available at: //github.com/rezaakb/pinns-tf2.
A remarkable ability of human beings resides in compositional reasoning, i.e., the capacity to make "infinite use of finite means". However, current large vision-language foundation models (VLMs) fall short of such compositional abilities due to their "bag-of-words" behaviors and inability to construct words that correctly represent visual entities and the relations among the entities. To this end, we propose CoVLM, which can guide the LLM to explicitly compose visual entities and relationships among the text and dynamically communicate with the vision encoder and detection network to achieve vision-language communicative decoding. Specifically, we first devise a set of novel communication tokens for the LLM, for dynamic communication between the visual detection system and the language system. A communication token is generated by the LLM following a visual entity or a relation, to inform the detection network to propose regions that are relevant to the sentence generated so far. The proposed regions-of-interests (ROIs) are then fed back into the LLM for better language generation contingent on the relevant regions. The LLM is thus able to compose the visual entities and relationships through the communication tokens. The vision-to-language and language-to-vision communication are iteratively performed until the entire sentence is generated. Our framework seamlessly bridges the gap between visual perception and LLMs and outperforms previous VLMs by a large margin on compositional reasoning benchmarks (e.g., ~20% in HICO-DET mAP, ~14% in Cola top-1 accuracy, and ~3% on ARO top-1 accuracy). We also achieve state-of-the-art performances on traditional vision-language tasks such as referring expression comprehension and visual question answering.
Tea leaf diseases are a major challenge to agricultural productivity, with far-reaching implications for yield and quality in the tea industry. The rise of machine learning has enabled the development of innovative approaches to combat these diseases. Early detection and diagnosis are crucial for effective crop management. For predicting tea leaf disease, several automated systems have already been developed using different image processing techniques. This paper delivers a systematic review of the literature on machine learning methodologies applied to diagnose tea leaf disease via image classification. It thoroughly evaluates the strengths and constraints of various Vision Transformer models, including Inception Convolutional Vision Transformer (ICVT), GreenViT, PlantXViT, PlantViT, MSCVT, Transfer Learning Model & Vision Transformer (TLMViT), IterationViT, IEM-ViT. Moreover, this paper also reviews models like Dense Convolutional Network (DenseNet), Residual Neural Network (ResNet)-50V2, YOLOv5, YOLOv7, Convolutional Neural Network (CNN), Deep CNN, Non-dominated Sorting Genetic Algorithm (NSGA-II), MobileNetv2, and Lesion-Aware Visual Transformer. These machine-learning models have been tested on various datasets, demonstrating their real-world applicability. This review study not only highlights current progress in the field but also provides valuable insights for future research directions in the machine learning-based detection and classification of tea leaf diseases.
Quantitative evaluation metrics have traditionally been pivotal in gauging the advancements of artificial intelligence systems, including large language models (LLMs). However, these metrics have inherent limitations. Given the intricate nature of real-world tasks, a single scalar to quantify and compare is insufficient to capture the fine-grained nuances of model behavior. Metrics serve only as a way to compare and benchmark models, and do not yield actionable diagnostics, thus making the model improvement process challenging. Model developers find themselves amid extensive manual efforts involving sifting through vast datasets and attempting hit-or-miss adjustments to training data or setups. In this work, we address the shortcomings of quantitative metrics by proposing QualEval, which augments quantitative scalar metrics with automated qualitative evaluation as a vehicle for model improvement. QualEval uses a powerful LLM reasoner and our novel flexible linear programming solver to generate human-readable insights that when applied, accelerate model improvement. The insights are backed by a comprehensive dashboard with fine-grained visualizations and human-interpretable analyses. We corroborate the faithfulness of QualEval by demonstrating that leveraging its insights, for example, improves the absolute performance of the Llama 2 model by up to 15% points relative on a challenging dialogue task (DialogSum) when compared to baselines. QualEval successfully increases the pace of model development, thus in essence serving as a data-scientist-in-a-box. Given the focus on critiquing and improving current evaluation metrics, our method serves as a refreshingly new technique for both model evaluation and improvement.
Mixed-precision quantization is a popular approach for compressing deep neural networks (DNNs). However, it is challenging to scale the performance efficiently with mixed-precision DNNs given the current FPGA architecture and conventional accelerator dataflows. In this work, we enhance the FPGA's capability for accelerating mixed-precision DNNs by proposing M4BRAM, a novel compute-in-block RAM (BRAM) architecture that can compute mixed-precision matrix-matrix multiplication. On the precision side, M4BRAM supports a wide range of mixed-precision DNN configurations -- the weight precision can be 2/4/8 bits while the activation precision can vary from 2 to 8 bits. On the dataflow side, M4BRAM leverages a novel in-BRAM data duplication scheme to achieve high hardware utilization. Moreover, during M4BRAM computation, other FPGA resources can seamlessly access its data without the need for a separate buffer. Hence, unlike prior compute-in-BRAM proposals, M4BRAM can simultaneously perform mixed-precision computation and maintain full functionality as a memory unit to \textit{truly} complement the existing compute resources on FPGAs. Experiments show that adding M4BRAM to a tiled DNN accelerator can achieve an average speedup of 2.16$\times$ across various DNNs on the ImageNet classification task while incurring a negligible accuracy loss of $<$ 0.5%. Compared to the same tiled accelerator that employs a prior compute-in-BRAM architecture, M4BRAM delivers 1.43$\times$ higher performance on average across various DNNs.
Activation functions are the linchpins of deep learning, profoundly influencing both the representational capacity and training dynamics of neural networks. They shape not only the nature of representations but also optimize convergence rates and enhance generalization potential. Appreciating this critical role, we present the Linear Oscillation (LoC) activation function, defined as $f(x) = x \times \sin(\alpha x + \beta)$. Distinct from conventional activation functions which primarily introduce non-linearity, LoC seamlessly blends linear trajectories with oscillatory deviations. The nomenclature "Linear Oscillation" is a nod to its unique attribute of infusing linear activations with harmonious oscillations, capturing the essence of the "Importance of Confusion". This concept of "controlled confusion" within network activations is posited to foster more robust learning, particularly in contexts that necessitate discerning subtle patterns. Our empirical studies reveal that, when integrated into diverse neural architectures, the LoC activation function consistently outperforms established counterparts like ReLU and Sigmoid. The stellar performance exhibited by the avant-garde Vision Transformer model using LoC further validates its efficacy. This study illuminates the remarkable benefits of the LoC over other prominent activation functions. It champions the notion that intermittently introducing deliberate complexity or "confusion" during training can spur more profound and nuanced learning. This accentuates the pivotal role of judiciously selected activation functions in shaping the future of neural network training.
Learning disentanglement aims at finding a low dimensional representation which consists of multiple explanatory and generative factors of the observational data. The framework of variational autoencoder (VAE) is commonly used to disentangle independent factors from observations. However, in real scenarios, factors with semantics are not necessarily independent. Instead, there might be an underlying causal structure which renders these factors dependent. We thus propose a new VAE based framework named CausalVAE, which includes a Causal Layer to transform independent exogenous factors into causal endogenous ones that correspond to causally related concepts in data. We further analyze the model identifiabitily, showing that the proposed model learned from observations recovers the true one up to a certain degree. Experiments are conducted on various datasets, including synthetic and real word benchmark CelebA. Results show that the causal representations learned by CausalVAE are semantically interpretable, and their causal relationship as a Directed Acyclic Graph (DAG) is identified with good accuracy. Furthermore, we demonstrate that the proposed CausalVAE model is able to generate counterfactual data through "do-operation" to the causal factors.
Human doctors with well-structured medical knowledge can diagnose a disease merely via a few conversations with patients about symptoms. In contrast, existing knowledge-grounded dialogue systems often require a large number of dialogue instances to learn as they fail to capture the correlations between different diseases and neglect the diagnostic experience shared among them. To address this issue, we propose a more natural and practical paradigm, i.e., low-resource medical dialogue generation, which can transfer the diagnostic experience from source diseases to target ones with a handful of data for adaptation. It is capitalized on a commonsense knowledge graph to characterize the prior disease-symptom relations. Besides, we develop a Graph-Evolving Meta-Learning (GEML) framework that learns to evolve the commonsense graph for reasoning disease-symptom correlations in a new disease, which effectively alleviates the needs of a large number of dialogues. More importantly, by dynamically evolving disease-symptom graphs, GEML also well addresses the real-world challenges that the disease-symptom correlations of each disease may vary or evolve along with more diagnostic cases. Extensive experiment results on the CMDD dataset and our newly-collected Chunyu dataset testify the superiority of our approach over state-of-the-art approaches. Besides, our GEML can generate an enriched dialogue-sensitive knowledge graph in an online manner, which could benefit other tasks grounded on knowledge graph.
Applying artificial intelligence techniques in medical imaging is one of the most promising areas in medicine. However, most of the recent success in this area highly relies on large amounts of carefully annotated data, whereas annotating medical images is a costly process. In this paper, we propose a novel method, called FocalMix, which, to the best of our knowledge, is the first to leverage recent advances in semi-supervised learning (SSL) for 3D medical image detection. We conducted extensive experiments on two widely used datasets for lung nodule detection, LUNA16 and NLST. Results show that our proposed SSL methods can achieve a substantial improvement of up to 17.3% over state-of-the-art supervised learning approaches with 400 unlabeled CT scans.
The design of deep graph models still remains to be investigated and the crucial part is how to explore and exploit the knowledge from different hops of neighbors in an efficient way. In this paper, we propose a novel RNN-like deep graph neural network architecture by incorporating AdaBoost into the computation of network; and the proposed graph convolutional network called AdaGCN~(AdaBoosting Graph Convolutional Network) has the ability to efficiently extract knowledge from high-order neighbors and integrate knowledge from different hops of neighbors into the network in an AdaBoost way. We also present the architectural difference between AdaGCN and existing graph convolutional methods to show the benefits of our proposal. Finally, extensive experiments demonstrate the state-of-the-art prediction performance and the computational advantage of our approach AdaGCN.
小貼士
登錄享
相關主題
注冊地址： 北京市海淀區羊坊店路18號2幢3層301-191