Joint Hierarchical Category Structure Learning and Large-Scale Image Classification

Systematic inference of super-resolution cell spatial profiles from histology images

Inferring cell spatial profiles from histology images is critical for cancer diagnosis and treatment in clinical settings. In this study, we report a weakly-supervised deep-learning method, HistoCell, to directly infer super-resolution cell spatial profiles consisting of cell types, cell states and their spatial network from histology images at the single-nucleus-level. Benchmark analysis demonstrates that HistoCell robustly achieves state-of-the-art performance in terms of cell type/states prediction solely from histology images across multiple cancer tissues. HistoCell can significantly enhance the deconvolution accuracy for the spatial transcriptomics data and enable accurate annotation of subtle cancer tissue architectures. Moreover, HistoCell is applied to de novo discovery of clinically relevant spatial organization indicators, including prognosis and drug response biomarkers, across diverse cancer types. HistoCell also enable image-based screening of cell populations that drives phenotype of interest, and is applied to discover the cell population and corresponding spatial organization indicators associated with gastric malignant transformation risk. Overall, HistoCell emerges as a powerful and versatile tool for cancer studies in histology image-only cohorts.

Discriminative Fast Hierarchical Learning for Multiclass Image Classification

In this article, a discriminative fast hierarchical learning algorithm is developed for supporting multiclass image classification, where a visual tree is seamlessly integrated with multitask learning to achieve fast training of the tree classifier hierarchically (i.e., a set of structural node classifiers over the visual tree). By partitioning a large number of categories hierarchically in a coarse-to-fine fashion, a visual tree is first constructed and further used to handle data imbalance and identify the interrelated learning tasks automatically (e.g., the tasks for learning the node classifiers for the sibling child nodes under the same parent node are strongly interrelated), and a multitask SVM classifier is trained for each nonleaf node to achieve more effective separation of its sibling child nodes at the next level of the visual tree. Both the internode visual similarities and the interlevel visual correlations are utilized to train more discriminative multitask SVM classifiers and control the interlevel error propagation effectively, and a stochastic gradient descent (SGD) algorithm is developed for learning such multitask SVM classifiers with higher efficiency. Our experimental results have demonstrated that our fast hierarchical learning algorithm can achieve very competitive results on both the classification accuracy rates and the computational efficiency.

Exploiting Related and Unrelated Tasks for Hierarchical Metric Learning and Image Classification

In multi-task learning, multiple interrelated tasks are jointly learned to achieve better performance. In many cases, if we can identify which tasks are related, we can also clearly identify which tasks are unrelated. In the past, most researchers emphasized exploiting correlations among interrelated tasks while completely ignoring the unrelated tasks that may provide valuable prior knowledge for multi-task learning. In this paper, a new approach is developed to hierarchically learn a tree of multi-task metrics by leveraging prior knowledge about both the related tasks and unrelated tasks. First, a visual tree is constructed to hierarchically organize large numbers of image categories in a coarse-to-fine fashion. Over the visual tree, a multi-task metric classifier is learned for each node by exploiting both the related and unrelated tasks, where the learning tasks for training the classifiers for the sibling child nodes under the same parent node are treated as the interrelated tasks, and the others are treated as the unrelated tasks. In addition, the node-specific metric for the parent node is propagated to its sibling child nodes to control inter-level error propagation. Our experimental results demonstrate that our hierarchical metric learning algorithm achieves better results than other state-of-the-art algorithms.

Semantically Modeling of Object and Context for Categorization

Object-centric-based categorization methods have been proven more effective than hard partitions of images (e.g., spatial pyramid matching). However, how to determine the locations of objects is still an open problem. Besides, modeling of context areas is often mixed with the background. Moreover, the semantic information is often ignored by these methods that only use visual representations for classification. In this paper, we propose an object categorization method by semantically modeling the object and context information (SOC). We first select a number of candidate regions with high confidence scores and semantically represent these regions by measuring correlations of each region with prelearned classifiers (e.g., local feature-based classifiers and deep convolutional-neural-network-based classifiers). These regions are clustered for object selections. The other selected areas are then viewed as context areas. We treat other areas beyond the object and context areas within one image as the background. The visually and semantically represented objects and contexts are then used along with the background area for object representations and categorizations. Experimental results on several public data sets well demonstrate the effectiveness of the proposed object categorization method by semantically modeling the object and context information.