Bringing Back the Context: Camera Trap Species Identification as Link Prediction on Multimodal Knowledge Graphs

Camera traps are valuable tools in animal ecology for biodiversity monitoring and conservation. However, challenges like poor generalization to deployment at new unseen locations limit their practical application. Images are naturally associated with heterogeneous forms of context possibly in different modalities. In this work, we leverage the structured context associated with the camera trap images to improve out-of-distribution generalization for the task of species identification in camera traps. For example, a photo of a wild animal may be associated with information about where and when it was taken, as well as structured biology knowledge about the animal species. While typically overlooked by existing work, bringing back such context offers several potential benefits for better image understanding, such as addressing data scarcity and enhancing generalization. However, effectively integrating such heterogeneous context into the visual domain is a challenging problem. To address this, we propose a novel framework that reformulates species classification as link prediction in a multimodal knowledge graph (KG). This framework seamlessly integrates various forms of multimodal context for visual recognition. We apply this framework for out-of-distribution species classification on the iWildCam2020-WILDS and Snapshot Mountain Zebra datasets and achieve competitive performance with state-of-the-art approaches. Furthermore, our framework successfully incorporates biological taxonomy for improved generalization and enhances sample efficiency for recognizing under-represented species.

NeutronStream: A Dynamic GNN Training Framework with Sliding Window for Graph Streams

Existing Graph Neural Network (GNN) training frameworks have been designed to help developers easily create performant GNN implementations. However, most existing GNN frameworks assume that the input graphs are static, but ignore that most real-world graphs are constantly evolving. Though many dynamic GNN models have emerged to learn from evolving graphs, the training process of these dynamic GNNs is dramatically different from traditional GNNs in that it captures both the spatial and temporal dependencies of graph updates. This poses new challenges for designing dynamic GNN training frameworks. First, the traditional batched training method fails to capture real-time structural evolution information. Second, the time-dependent nature makes parallel training hard to design. Third, it lacks system supports for users to efficiently implement dynamic GNNs. In this paper, we present NeutronStream, a framework for training dynamic GNN models. NeutronStream abstracts the input dynamic graph into a chronologically updated stream of events and processes the stream with an optimized sliding window to incrementally capture the spatial-temporal dependencies of events. Furthermore, NeutronStream provides a parallel execution engine to tackle the sequential event processing challenge to achieve high performance. NeutronStream also integrates a built-in graph storage structure that supports dynamic updates and provides a set of easy-to-use APIs that allow users to express their dynamic GNNs. Our experimental results demonstrate that, compared to state-of-the-art dynamic GNN implementations, NeutronStream achieves speedups ranging from 1.48X to 5.87X and an average accuracy improvement of 3.97%.

Comprehensive Evaluation of GNN Training Systems: A Data Management Perspective

Many Graph Neural Network (GNN) training systems have emerged recently to support efficient GNN training. Since GNNs embody complex data dependencies between training samples, the training of GNNs should address distinct challenges different from DNN training in data management, such as data partitioning, batch preparation for mini-batch training, and data transferring between CPUs and GPUs. These factors, which take up a large proportion of training time, make data management in GNN training more significant. This paper reviews GNN training from a data management perspective and provides a comprehensive analysis and evaluation of the representative approaches. We conduct extensive experiments on various benchmark datasets and show many interesting and valuable results. We also provide some practical tips learned from these experiments, which are helpful for designing GNN training systems in the future.

NeutronOrch: Rethinking Sample-based GNN Training under CPU-GPU Heterogeneous Environments

Graph Neural Networks (GNNs) have demonstrated outstanding performance in various applications. Existing frameworks utilize CPU-GPU heterogeneous environments to train GNN models and integrate mini-batch and sampling techniques to overcome the GPU memory limitation. In CPU-GPU heterogeneous environments, we can divide sample-based GNN training into three steps: sample, gather, and train. Existing GNN systems use different task orchestrating methods to employ each step on CPU or GPU. After extensive experiments and analysis, we find that existing task orchestrating methods fail to fully utilize the heterogeneous resources, limited by inefficient CPU processing or GPU resource contention. In this paper, we propose NeutronOrch, a system for sample-based GNN training that incorporates a layer-based task orchestrating method and ensures balanced utilization of the CPU and GPU. NeutronOrch decouples the training process by layer and pushes down the training task of the bottom layer to the CPU. This significantly reduces the computational load and memory footprint of GPU training. To avoid inefficient CPU processing, NeutronOrch only offloads the training of frequently accessed vertices to the CPU and lets GPU reuse their embeddings with bounded staleness. Furthermore, NeutronOrch provides a fine-grained pipeline design for the layer-based task orchestrating method, fully overlapping different tasks on heterogeneous resources while strictly guaranteeing bounded staleness. The experimental results show that compared with the state-of-the-art GNN systems, NeutronOrch can achieve up to 4.61x performance speedup.

Modeling User Viewing Flow using Large Language Models for Article Recommendation

This paper proposes the User Viewing Flow Modeling (SINGLE) method for the article recommendation task, which models the user constant preference and instant interest from user-clicked articles. Specifically, we employ a user constant viewing flow modeling method to summarize the user's general interest to recommend articles. We utilize Large Language Models (LLMs) to capture constant user preferences from previously clicked articles, such as skills and positions. Then we design the user instant viewing flow modeling method to build interactions between user-clicked article history and candidate articles. It attentively reads the representations of user-clicked articles and aims to learn the user's different interest views to match the candidate article. Our experimental results on the Alibaba Technology Association (ATA) website show the advantage of SINGLE, which achieves 2.4% improvements over previous baseline models in the online A/B test. Our further analyses illustrate that SINGLE has the ability to build a more tailored recommendation system by mimicking different article viewing behaviors of users and recommending more appropriate and diverse articles to match user interests.

Unlock Multi-Modal Capability of Dense Retrieval via Visual Module Plugin

This paper proposes Multi-modAl Retrieval model via Visual modulE pLugin (MARVEL) to learn an embedding space for queries and multi-modal documents to conduct retrieval. MARVEL encodes queries and multi-modal documents with a unified encoder model, which helps to alleviate the modality gap between images and texts. Specifically, we enable the image understanding ability of a well-trained dense retriever, T5-ANCE, by incorporating the image features encoded by the visual module as its inputs. To facilitate the multi-modal retrieval tasks, we build the ClueWeb22-MM dataset based on the ClueWeb22 dataset, which regards anchor texts as queries, and exact the related texts and image documents from anchor linked web pages. Our experiments show that MARVEL significantly outperforms the state-of-the-art methods on the multi-modal retrieval dataset WebQA and ClueWeb22-MM. Our further analyses show that the visual module plugin method is tailored to enable the image understanding ability for an existing dense retrieval model. Besides, we also show that the language model has the ability to extract image semantics from image encoders and adapt the image features in the input space of language models. All codes are available at https://github.com/OpenMatch/MARVEL.

BiomedJourney: Counterfactual Biomedical Image Generation by Instruction-Learning from Multimodal Patient Journeys

Rapid progress has been made in instruction-learning for image editing with natural-language instruction, as exemplified by InstructPix2Pix. In biomedicine, such methods can be applied to counterfactual image generation, which helps differentiate causal structure from spurious correlation and facilitate robust image interpretation for disease progression modeling. However, generic image-editing models are ill-suited for the biomedical domain, and counterfactual biomedical image generation is largely underexplored. In this paper, we present BiomedJourney, a novel method for counterfactual biomedical image generation by instruction-learning from multimodal patient journeys. Given a patient with two biomedical images taken at different time points, we use GPT-4 to process the corresponding imaging reports and generate a natural language description of disease progression. The resulting triples (prior image, progression description, new image) are then used to train a latent diffusion model for counterfactual biomedical image generation. Given the relative scarcity of image time series data, we introduce a two-stage curriculum that first pretrains the denoising network using the much more abundant single image-report pairs (with dummy prior image), and then continues training using the counterfactual triples. Experiments using the standard MIMIC-CXR dataset demonstrate the promise of our method. In a comprehensive battery of tests on counterfactual medical image generation, BiomedJourney substantially outperforms prior state-of-the-art methods in instruction image editing and medical image generation such as InstructPix2Pix and RoentGen. To facilitate future study in counterfactual medical generation, we plan to release our instruction-learning code and pretrained models.

ONNXExplainer: an ONNX Based Generic Framework to Explain Neural Networks Using Shapley Values

Understanding why a neural network model makes certain decisions can be as important as the inference performance. Various methods have been proposed to help practitioners explain the prediction of a neural network model, of which Shapley values are most popular. SHAP package is a leading implementation of Shapley values to explain neural networks implemented in TensorFlow or PyTorch but lacks cross-platform support, one-shot deployment and is highly inefficient. To address these problems, we present the ONNXExplainer, which is a generic framework to explain neural networks using Shapley values in the ONNX ecosystem. In ONNXExplainer, we develop its own automatic differentiation and optimization approach, which not only enables One-Shot Deployment of neural networks inference and explanations, but also significantly improves the efficiency to compute explanation with less memory consumption. For fair comparison purposes, we also implement the same optimization in TensorFlow and PyTorch and measure its performance against the current state of the art open-source counterpart, SHAP. Extensive benchmarks demonstrate that the proposed optimization approach improves the explanation latency of VGG19, ResNet50, DenseNet201, and EfficientNetB0 by as much as 500%.

DurIAN-E: Duration Informed Attention Network For Expressive Text-to-Speech Synthesis

This paper introduces an improved duration informed attention neural network (DurIAN-E) for expressive and high-fidelity text-to-speech (TTS) synthesis. Inherited from the original DurIAN model, an auto-regressive model structure in which the alignments between the input linguistic information and the output acoustic features are inferred from a duration model is adopted. Meanwhile the proposed DurIAN-E utilizes multiple stacked SwishRNN-based Transformer blocks as linguistic encoders. Style-Adaptive Instance Normalization (SAIN) layers are exploited into frame-level encoders to improve the modeling ability of expressiveness. A denoiser incorporating both denoising diffusion probabilistic model (DDPM) for mel-spectrograms and SAIN modules is conducted to further improve the synthetic speech quality and expressiveness. Experimental results prove that the proposed expressive TTS model in this paper can achieve better performance than the state-of-the-art approaches in both subjective mean opinion score (MOS) and preference tests.