The application of natural language processing (NLP) to cancer pathology reports has been focused on detecting cancer cases, largely ignoring precancerous cases. Improving the characterization of precancerous adenomas assists in developing diagnostic tests for early cancer detection and prevention, especially for colorectal cancer (CRC). Here we developed transformer-based deep neural network NLP models to perform the CRC phenotyping, with the goal of extracting precancerous lesion attributes and distinguishing cancer and precancerous cases. We achieved 0.914 macro-F1 scores for classifying patients into negative, non-advanced adenoma, advanced adenoma and CRC. We further improved the performance to 0.923 using an ensemble of classifiers for cancer status classification and lesion size named entity recognition (NER). Our results demonstrated the potential of using NLP to leverage real-world health record data to facilitate the development of diagnostic tests for early cancer prevention.

Among current anchor-based detectors, a positive anchor box will be intuitively assigned to the object that overlaps it the most. The assigned label to each anchor will directly determine the optimization direction of the corresponding prediction box, including the direction of box regression and category prediction. In our practice of crowded object detection, however, the results show that a positive anchor does not always regress toward the object that overlaps it the most when multiple objects overlap. We name it anchor drift. The anchor drift reflects that the anchor-object matching relation, which is determined by the degree of overlap between anchors and objects, is not always optimal. Conflicts between the fixed matching relation and learned experience in the past training process may cause ambiguous predictions and thus raise the false-positive rate. In this paper, a simple but efficient adaptive two-stage anchor assignment (TSAA) method is proposed. It utilizes the final prediction boxes rather than the fixed anchors to calculate the overlap degree with objects to determine which object to regress for each anchor. The participation of the prediction box makes the anchor-object assignment mechanism adaptive. Extensive experiments are conducted on three classic detectors RetinaNet, Faster-RCNN and YOLOv3 on CrowdHuman and COCO to evaluate the effectiveness of TSAA. The results show that TSAA can significantly improve the detectors' performance without additional computational costs or network structure changes.

Weakly-supervised object localization aims to indicate the category as well as the scope of an object in an image given only the image-level labels. Most of the existing works are based on Class Activation Mapping (CAM) and endeavor to enlarge the discriminative area inside the activation map to perceive the whole object, yet ignore the co-occurrence confounder of the object and context (e.g., fish and water), which makes the model inspection hard to distinguish object boundaries. Besides, the use of CAM also brings a dilemma problem that the classification and localization always suffer from a performance gap and can not reach their highest accuracy simultaneously. In this paper, we propose a casual knowledge distillation method, dubbed KD-CI-CAM, to address these two under-explored issues in one go. More specifically, we tackle the co-occurrence context confounder problem via causal intervention (CI), which explores the causalities among image features, contexts, and categories to eliminate the biased object-context entanglement in the class activation maps. Based on the de-biased object feature, we additionally propose a multi-teacher causal distillation framework to balance the absorption of classification knowledge and localization knowledge during model training. Extensive experiments on several benchmarks demonstrate the effectiveness of KD-CI-CAM in learning clear object boundaries from confounding contexts and addressing the dilemma problem between classification and localization performance.

An increasing number of public datasets have shown a marked clinical impact on assessing anatomical structures. However, each of the datasets is small, partially labeled, and rarely investigates severe tumor subjects. Moreover, current models are limited to segmenting specific organs/tumors, which can not be extended to novel domains and classes. To tackle these limitations, we introduce embedding learned from Contrastive Language-Image Pre-training (CLIP) to segmentation models, dubbed the CLIP-Driven Universal Model. The Universal Model can better segment 25 organs and 6 types of tumors by exploiting the semantic relationship between abdominal structures. The model is developed from an assembly of 14 datasets with 3,410 CT scans and evaluated on 6,162 external CT scans from 3 datasets. We rank first on the public leaderboard of the Medical Segmentation Decathlon (MSD) and achieve the state-of-the-art results on Beyond The Cranial Vault (BTCV). Compared with dataset-specific models, the Universal Model is computationally more efficient (6x faster), generalizes better to CT scans from varying sites, and shows stronger transfer learning performance on novel tasks. The design of CLIP embedding enables the Universal Model to be easily extended to new classes without catastrophically forgetting the previously learned classes.

In this work, we tackle two vital tasks in automated driving systems, i.e., driver intent prediction and risk object identification from egocentric images. Mainly, we investigate the question: what would be good road scene-level representations for these two tasks? We contend that a scene-level representation must capture higher-level semantic and geometric representations of traffic scenes around ego-vehicle while performing actions to their destinations. To this end, we introduce the representation of semantic regions, which are areas where ego-vehicles visit while taking an afforded action (e.g., left-turn at 4-way intersections). We propose to learn scene-level representations via a novel semantic region prediction task and an automatic semantic region labeling algorithm. Extensive evaluations are conducted on the HDD and nuScenes datasets, and the learned representations lead to state-of-the-art performance for driver intention prediction and risk object identification.

New architecture GPUs like A100 are now equipped with multi-instance GPU (MIG) technology, which allows the GPU to be partitioned into multiple small, isolated instances. This technology provides more flexibility for users to support both deep learning training and inference workloads, but efficiently utilizing it can still be challenging. The vision of this paper is to provide a more comprehensive and practical benchmark study for MIG in order to eliminate the need for tedious manual benchmarking and tuning efforts. To achieve this vision, the paper presents MIGPerf, an open-source tool that streamlines the benchmark study for MIG. Using MIGPerf, the authors conduct a series of experiments, including deep learning training and inference characterization on MIG, GPU sharing characterization, and framework compatibility with MIG. The results of these experiments provide new insights and guidance for users to effectively employ MIG, and lay the foundation for further research on the orchestration of hybrid training and inference workloads on MIGs. The code and results are released on https://github.com/MLSysOps/MIGProfiler. This work is still in progress and more results will be published soon.

There are multiple scales of abstraction from which we can describe the same image, depending on whether we are focusing on fine-grained details or a more global attribute of the image. In brain mapping, learning to automatically parse images to build representations of both small-scale features (e.g., the presence of cells or blood vessels) and global properties of an image (e.g., which brain region the image comes from) is a crucial and open challenge. However, most existing datasets and benchmarks for neuroanatomy consider only a single downstream task at a time. To bridge this gap, we introduce a new dataset, annotations, and multiple downstream tasks that provide diverse ways to readout information about brain structure and architecture from the same image. Our multi-task neuroimaging benchmark (MTNeuro) is built on volumetric, micrometer-resolution X-ray microtomography images spanning a large thalamocortical section of mouse brain, encompassing multiple cortical and subcortical regions. We generated a number of different prediction challenges and evaluated several supervised and self-supervised models for brain-region prediction and pixel-level semantic segmentation of microstructures. Our experiments not only highlight the rich heterogeneity of this dataset, but also provide insights into how self-supervised approaches can be used to learn representations that capture multiple attributes of a single image and perform well on a variety of downstream tasks. Datasets, code, and pre-trained baseline models are provided at: https://mtneuro.github.io/ .

Designing better deep networks and better reinforcement learning (RL) algorithms are both important for deep RL. This work focuses on the former. Previous methods build the network with several modules like CNN, LSTM and Attention. Recent methods combine the Transformer with these modules for better performance. However, it requires tedious optimization skills to train a network composed of mixed modules, making these methods inconvenient to be used in practice. In this paper, we propose to design \emph{pure Transformer-based networks} for deep RL, aiming at providing off-the-shelf backbones for both the online and offline settings. Specifically, the Transformer in Transformer (TIT) backbone is proposed, which cascades two Transformers in a very natural way: the inner one is used to process a single observation, while the outer one is responsible for processing the observation history; combining both is expected to extract spatial-temporal representations for good decision-making. Experiments show that TIT can achieve satisfactory performance in different settings, consistently.

This paper investigates the use of artificial neural networks (ANNs) to solve differential equations (DEs) and the construction of the loss function which meets both differential equation and its initial/boundary condition of a certain DE. In section 2, the loss function is generalized to $n^\text{th}$ order ordinary differential equation(ODE). Other methods of construction are examined in Section 3 and applied to three different models to assess their effectiveness.

In this work, we introduce a hypergraph representation learning framework called Hypergraph Neural Networks (HNN) that jointly learns hyperedge embeddings along with a set of hyperedge-dependent embeddings for each node in the hypergraph. HNN derives multiple embeddings per node in the hypergraph where each embedding for a node is dependent on a specific hyperedge of that node. Notably, HNN is accurate, data-efficient, flexible with many interchangeable components, and useful for a wide range of hypergraph learning tasks. We evaluate the effectiveness of the HNN framework for hyperedge prediction and hypergraph node classification. We find that HNN achieves an overall mean gain of 7.72% and 11.37% across all baseline models and graphs for hyperedge prediction and hypergraph node classification, respectively.