xTrimoPGLM: Unified 100B-Scale Pre-trained Transformer for Deciphering the Language of Protein

Protein language models have shown remarkable success in learning biological information from protein sequences. However, most existing models are limited by either autoencoding or autoregressive pre-training objectives, which makes them struggle to handle protein understanding and generation tasks concurrently. We propose a unified protein language model, xTrimoPGLM, to address these two types of tasks simultaneously through an innovative pre-training framework. Our key technical contribution is an exploration of the compatibility and the potential for joint optimization of the two types of objectives, which has led to a strategy for training xTrimoPGLM at an unprecedented scale of 100 billion parameters and 1 trillion training tokens. Our extensive experiments reveal that 1) xTrimoPGLM significantly outperforms other advanced baselines in 18 protein understanding benchmarks across four categories. The model also facilitates an atomic-resolution view of protein structures, leading to an advanced 3D structural prediction model that surpasses existing language model-based tools. 2) xTrimoPGLM not only can generate de novo protein sequences following the principles of natural ones, but also can perform programmable generation after supervised fine-tuning (SFT) on curated sequences. These results highlight the substantial capability and versatility of xTrimoPGLM in understanding and generating protein sequences, contributing to the evolving landscape of foundation models in protein science.

Towards Plastic and Stable Exemplar-Free Incremental Learning: A Dual-Learner Framework with Cumulative Parameter Averaging

The dilemma between plasticity and stability presents a significant challenge in Incremental Learning (IL), especially in the exemplar-free scenario where accessing old-task samples is strictly prohibited during the learning of a new task. A straightforward solution to this issue is learning and storing an independent model for each task, known as Single Task Learning (STL). Despite the linear growth in model storage with the number of tasks in STL, we empirically discover that averaging these model parameters can potentially preserve knowledge across all tasks. Inspired by this observation, we propose a Dual-Learner framework with Cumulative Parameter Averaging (DLCPA). DLCPA employs a dual-learner design: a plastic learner focused on acquiring new-task knowledge and a stable learner responsible for accumulating all learned knowledge. The knowledge from the plastic learner is transferred to the stable learner via cumulative parameter averaging. Additionally, several task-specific classifiers work in cooperation with the stable learner to yield the final prediction. Specifically, when learning a new task, these modules are updated in a cyclic manner: i) the plastic learner is initially optimized using a self-supervised loss besides the supervised loss to enhance the feature extraction robustness; ii) the stable learner is then updated with respect to the plastic learner in a cumulative parameter averaging manner to maintain its task-wise generalization; iii) the task-specific classifier is accordingly optimized to align with the stable learner. Experimental results on CIFAR-100 and Tiny-ImageNet show that DLCPA outperforms several state-of-the-art exemplar-free baselines in both Task-IL and Class-IL settings.

Exemplar-free Class Incremental Learning via Discriminative and Comparable One-class Classifiers

The exemplar-free class incremental learning requires classification models to learn new class knowledge incrementally without retaining any old samples. Recently, the framework based on parallel one-class classifiers (POC), which trains a one-class classifier (OCC) independently for each category, has attracted extensive attention, since it can naturally avoid catastrophic forgetting. POC, however, suffers from weak discriminability and comparability due to its independent training strategy for different OOCs. To meet this challenge, we propose a new framework, named Discriminative and Comparable One-class classifiers for Incremental Learning (DisCOIL). DisCOIL follows the basic principle of POC, but it adopts variational auto-encoders (VAE) instead of other well-established one-class classifiers (e.g. deep SVDD), because a trained VAE can not only identify the probability of an input sample belonging to a class but also generate pseudo samples of the class to assist in learning new tasks. With this advantage, DisCOIL trains a new-class VAE in contrast with the old-class VAEs, which forces the new-class VAE to reconstruct better for new-class samples but worse for the old-class pseudo samples, thus enhancing the comparability. Furthermore, DisCOIL introduces a hinge reconstruction loss to ensure the discriminability. We evaluate our method extensively on MNIST, CIFAR10, and Tiny-ImageNet. The experimental results show that DisCOIL achieves state-of-the-art performance.

MTNet: A Multi-Task Neural Network for On-Field Calibration of Low-Cost Air Monitoring Sensors

The advances of sensor technology enable people to monitor air quality through widely distributed low-cost sensors. However, measurements from these sensors usually encounter high biases and require a calibration step to reach an acceptable performance in down-streaming analytical tasks. Most existing calibration methods calibrate one type of sensor at a time, which we call single-task calibration. Despite the popularity of this single-task schema, it may neglect interactions among calibration tasks of different sensors, which encompass underlying information to promote calibration performance. In this paper, we propose a multi-task calibration network (MTNet) to calibrate multiple sensors (e.g., carbon monoxide and nitrogen oxide sensors) simultaneously, modeling the interactions among tasks. MTNet consists of a single shared module, and several task-specific modules. Specifically, in the shared module, we extend the multi-gate mixture-of-experts structure to harmonize the task conflicts and correlations among different tasks; in each task-specific module, we introduce a feature selection strategy to customize the input for the specific task. These improvements allow MTNet to learn interaction information shared across different tasks, and task-specific information for each calibration task as well. We evaluate MTNet on three real-world datasets and compare it with several established baselines. The experimental results demonstrate that MTNet achieves the state-of-the-art performance.